diff --git a/simulation/sim_ai_settings.py b/simulation/sim_ai_settings.py
index 06b9add..f7567bd 100644
--- a/simulation/sim_ai_settings.py
+++ b/simulation/sim_ai_settings.py
@@ -4,7 +4,7 @@ from simulation.sim_base import BaseSimulation, run_sim
 class AISettingsSimulation(BaseSimulation):
  def run(self) -> None:
   """
-  [C: simulation/sim_base.py:run_sim, tests/conftest.py:kill_process_tree, tests/conftest.py:live_gui, tests/test_conductor_abort_event.py:test_conductor_abort_event_populated, tests/test_conductor_engine_v2.py:test_conductor_engine_dynamic_parsing_and_execution, tests/test_conductor_engine_v2.py:test_conductor_engine_run_executes_tickets_in_order, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_external_editor_gui.py:get_vscode_processes, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui_custom_window.py:test_app_window_is_borderless, tests/test_headless_simulation.py:module, tests/test_headless_verification.py:test_headless_verification_error_and_qa_interceptor, tests/test_headless_verification.py:test_headless_verification_full_run, tests/test_mock_gemini_cli.py:run_mock, tests/test_orchestration_logic.py:test_conductor_engine_run, tests/test_parallel_execution.py:test_conductor_engine_pool_integration, tests/test_sim_ai_settings.py:test_ai_settings_simulation_run, tests/test_sim_context.py:test_context_simulation_run, tests/test_sim_execution.py:test_execution_simulation_run, tests/test_sim_tools.py:test_tools_simulation_run]
+    [C: simulation/sim_base.py:run_sim, tests/conftest.py:kill_process_tree, tests/conftest.py:live_gui, tests/test_conductor_abort_event.py:test_conductor_abort_event_populated, tests/test_conductor_engine_v2.py:test_conductor_engine_dynamic_parsing_and_execution, tests/test_conductor_engine_v2.py:test_conductor_engine_run_executes_tickets_in_order, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_external_editor_gui.py:get_vscode_processes, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui_custom_window.py:test_app_window_is_borderless, tests/test_headless_simulation.py:module, tests/test_headless_verification.py:test_headless_verification_error_and_qa_interceptor, tests/test_headless_verification.py:test_headless_verification_full_run, tests/test_mock_gemini_cli.py:run_mock, tests/test_orchestration_logic.py:test_conductor_engine_run, tests/test_parallel_execution.py:test_conductor_engine_pool_integration, tests/test_sim_ai_settings.py:test_ai_settings_simulation_run, tests/test_sim_context.py:test_context_simulation_run, tests/test_sim_execution.py:test_execution_simulation_run, tests/test_sim_tools.py:test_tools_simulation_run]
   """
   print("\n--- Running AI Settings Simulation (Gemini Only) ---")
   # 1. Verify initial model
diff --git a/simulation/sim_base.py b/simulation/sim_base.py
index c54f97e..a342241 100644
--- a/simulation/sim_base.py
+++ b/simulation/sim_base.py
@@ -63,7 +63,7 @@ class BaseSimulation:
 
  def setup(self, project_name: str = "SimProject") -> None:
   """
-  [C: simulation/sim_execution.py:ExecutionSimulation.setup, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_sim_base.py:test_base_simulation_setup]
+    [C: simulation/sim_execution.py:ExecutionSimulation.setup, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_sim_base.py:test_base_simulation_setup]
   """
   print("\n[BaseSim] Connecting to GUI...")
   if not self.client.wait_for_server(timeout=5):
@@ -92,7 +92,7 @@ class BaseSimulation:
 
  def teardown(self) -> None:
   """
-  [C: tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live]
+    [C: tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live]
   """
   if self.project_path and os.path.exists(self.project_path):
   # We keep it for debugging if it failed, but usually we'd clean up
@@ -102,13 +102,13 @@ class BaseSimulation:
 
  def get_value(self, tag: str) -> Any:
   """
-  [C: simulation/sim_context.py:ContextSimulation.run, simulation/sim_execution.py:ExecutionSimulation.run, simulation/workflow_sim.py:WorkflowSimulator.run_discussion_turn_async, simulation/workflow_sim.py:WorkflowSimulator.wait_for_ai_response, tests/smoke_status_hook.py:test_status_hook, tests/smoke_status_hook.py:wait_for_value, tests/test_auto_switch_sim.py:test_auto_switch_sim, tests/test_deepseek_infra.py:test_gui_provider_list_via_hooks, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_gui2_parity.py:test_gui2_click_hook_works, tests/test_gui2_parity.py:test_gui2_set_value_hook_works, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim, tests/test_rag_visual_sim.py:test_rag_full_lifecycle_sim, tests/test_rag_visual_sim.py:test_rag_settings_persistence_sim, tests/test_selectable_ui.py:test_selectable_label_stability, tests/test_system_prompt_sim.py:test_system_prompt_sim, tests/test_undo_redo_sim.py:test_undo_redo_context_mutation, tests/test_undo_redo_sim.py:test_undo_redo_discussion_mutation, tests/test_undo_redo_sim.py:test_undo_redo_lifecycle, tests/test_visual_mma.py:test_visual_mma_components, tests/test_workspace_profiles_sim.py:test_workspace_profiles_restoration]
+    [C: simulation/sim_context.py:ContextSimulation.run, simulation/sim_execution.py:ExecutionSimulation.run, simulation/workflow_sim.py:WorkflowSimulator.run_discussion_turn_async, simulation/workflow_sim.py:WorkflowSimulator.wait_for_ai_response, tests/smoke_status_hook.py:test_status_hook, tests/smoke_status_hook.py:wait_for_value, tests/test_auto_switch_sim.py:test_auto_switch_sim, tests/test_deepseek_infra.py:test_gui_provider_list_via_hooks, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_gui2_parity.py:test_gui2_click_hook_works, tests/test_gui2_parity.py:test_gui2_set_value_hook_works, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim, tests/test_rag_visual_sim.py:test_rag_full_lifecycle_sim, tests/test_rag_visual_sim.py:test_rag_settings_persistence_sim, tests/test_selectable_ui.py:test_selectable_label_stability, tests/test_system_prompt_sim.py:test_system_prompt_sim, tests/test_undo_redo_sim.py:test_undo_redo_context_mutation, tests/test_undo_redo_sim.py:test_undo_redo_discussion_mutation, tests/test_undo_redo_sim.py:test_undo_redo_lifecycle, tests/test_workspace_profiles_sim.py:test_workspace_profiles_restoration]
   """
   return self.client.get_value(tag)
 
  def wait_for_event(self, event_type: str, timeout: int = 5) -> Optional[dict]:
   """
-  [C: simulation/sim_execution.py:ExecutionSimulation.run, tests/test_z_negative_flows.py:test_mock_error_result, tests/test_z_negative_flows.py:test_mock_malformed_json, tests/test_z_negative_flows.py:test_mock_timeout]
+    [C: simulation/sim_execution.py:ExecutionSimulation.run, tests/test_z_negative_flows.py:test_mock_error_result, tests/test_z_negative_flows.py:test_mock_malformed_json, tests/test_z_negative_flows.py:test_mock_timeout]
   """
   return self.client.wait_for_event(event_type, timeout)
 
@@ -128,7 +128,8 @@ class BaseSimulation:
 
 def run_sim(sim_class: type) -> None:
  """
- Helper to run a simulation class standalone.
+ 
+  Helper to run a simulation class standalone.
   [C: simulation/sim_context.py:module, simulation/sim_execution.py:module, simulation/sim_tools.py:module]
  """
  sim = sim_class()
diff --git a/simulation/sim_context.py b/simulation/sim_context.py
index 2f205e2..c28573d 100644
--- a/simulation/sim_context.py
+++ b/simulation/sim_context.py
@@ -5,7 +5,7 @@ from simulation.sim_base import BaseSimulation, run_sim
 class ContextSimulation(BaseSimulation):
  def run(self) -> None:
   """
-  [C: tests/conftest.py:kill_process_tree, tests/conftest.py:live_gui, tests/test_conductor_abort_event.py:test_conductor_abort_event_populated, tests/test_conductor_engine_v2.py:test_conductor_engine_dynamic_parsing_and_execution, tests/test_conductor_engine_v2.py:test_conductor_engine_run_executes_tickets_in_order, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_external_editor_gui.py:get_vscode_processes, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui_custom_window.py:test_app_window_is_borderless, tests/test_headless_simulation.py:module, tests/test_headless_verification.py:test_headless_verification_error_and_qa_interceptor, tests/test_headless_verification.py:test_headless_verification_full_run, tests/test_mock_gemini_cli.py:run_mock, tests/test_orchestration_logic.py:test_conductor_engine_run, tests/test_parallel_execution.py:test_conductor_engine_pool_integration, tests/test_sim_ai_settings.py:test_ai_settings_simulation_run, tests/test_sim_context.py:test_context_simulation_run, tests/test_sim_execution.py:test_execution_simulation_run, tests/test_sim_tools.py:test_tools_simulation_run]
+    [C: tests/conftest.py:kill_process_tree, tests/conftest.py:live_gui, tests/test_conductor_abort_event.py:test_conductor_abort_event_populated, tests/test_conductor_engine_v2.py:test_conductor_engine_dynamic_parsing_and_execution, tests/test_conductor_engine_v2.py:test_conductor_engine_run_executes_tickets_in_order, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_external_editor_gui.py:get_vscode_processes, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui_custom_window.py:test_app_window_is_borderless, tests/test_headless_simulation.py:module, tests/test_headless_verification.py:test_headless_verification_error_and_qa_interceptor, tests/test_headless_verification.py:test_headless_verification_full_run, tests/test_mock_gemini_cli.py:run_mock, tests/test_orchestration_logic.py:test_conductor_engine_run, tests/test_parallel_execution.py:test_conductor_engine_pool_integration, tests/test_sim_ai_settings.py:test_ai_settings_simulation_run, tests/test_sim_context.py:test_context_simulation_run, tests/test_sim_execution.py:test_execution_simulation_run, tests/test_sim_tools.py:test_tools_simulation_run]
   """
   print("\n--- Running Context & Chat Simulation ---")
   # 1. Skip Discussion Creation, use 'main'
diff --git a/simulation/sim_execution.py b/simulation/sim_execution.py
index 2ce56aa..d49482e 100644
--- a/simulation/sim_execution.py
+++ b/simulation/sim_execution.py
@@ -5,7 +5,7 @@ from simulation.sim_base import BaseSimulation, run_sim
 class ExecutionSimulation(BaseSimulation):
  def setup(self, project_name: str = "SimProject") -> None:
   """
-  [C: tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_sim_base.py:test_base_simulation_setup]
+    [C: tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_sim_base.py:test_base_simulation_setup]
   """
   super().setup(project_name)
   if os.path.exists("hello.ps1"):
@@ -13,7 +13,7 @@ class ExecutionSimulation(BaseSimulation):
 
  def run(self) -> None:
   """
-  [C: tests/conftest.py:kill_process_tree, tests/conftest.py:live_gui, tests/test_conductor_abort_event.py:test_conductor_abort_event_populated, tests/test_conductor_engine_v2.py:test_conductor_engine_dynamic_parsing_and_execution, tests/test_conductor_engine_v2.py:test_conductor_engine_run_executes_tickets_in_order, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_external_editor_gui.py:get_vscode_processes, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui_custom_window.py:test_app_window_is_borderless, tests/test_headless_simulation.py:module, tests/test_headless_verification.py:test_headless_verification_error_and_qa_interceptor, tests/test_headless_verification.py:test_headless_verification_full_run, tests/test_mock_gemini_cli.py:run_mock, tests/test_orchestration_logic.py:test_conductor_engine_run, tests/test_parallel_execution.py:test_conductor_engine_pool_integration, tests/test_sim_ai_settings.py:test_ai_settings_simulation_run, tests/test_sim_context.py:test_context_simulation_run, tests/test_sim_execution.py:test_execution_simulation_run, tests/test_sim_tools.py:test_tools_simulation_run]
+    [C: tests/conftest.py:kill_process_tree, tests/conftest.py:live_gui, tests/test_conductor_abort_event.py:test_conductor_abort_event_populated, tests/test_conductor_engine_v2.py:test_conductor_engine_dynamic_parsing_and_execution, tests/test_conductor_engine_v2.py:test_conductor_engine_run_executes_tickets_in_order, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_external_editor_gui.py:get_vscode_processes, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui_custom_window.py:test_app_window_is_borderless, tests/test_headless_simulation.py:module, tests/test_headless_verification.py:test_headless_verification_error_and_qa_interceptor, tests/test_headless_verification.py:test_headless_verification_full_run, tests/test_mock_gemini_cli.py:run_mock, tests/test_orchestration_logic.py:test_conductor_engine_run, tests/test_parallel_execution.py:test_conductor_engine_pool_integration, tests/test_sim_ai_settings.py:test_ai_settings_simulation_run, tests/test_sim_context.py:test_context_simulation_run, tests/test_sim_execution.py:test_execution_simulation_run, tests/test_sim_tools.py:test_tools_simulation_run]
   """
   print("\n--- Running Execution & Modals Simulation ---")
   # 1. Trigger script generation (Async so we don't block on the wait loop)
diff --git a/simulation/sim_tools.py b/simulation/sim_tools.py
index 484b590..c2ff7cd 100644
--- a/simulation/sim_tools.py
+++ b/simulation/sim_tools.py
@@ -4,7 +4,7 @@ from simulation.sim_base import BaseSimulation, run_sim
 class ToolsSimulation(BaseSimulation):
  def run(self) -> None:
   """
-  [C: tests/conftest.py:kill_process_tree, tests/conftest.py:live_gui, tests/test_conductor_abort_event.py:test_conductor_abort_event_populated, tests/test_conductor_engine_v2.py:test_conductor_engine_dynamic_parsing_and_execution, tests/test_conductor_engine_v2.py:test_conductor_engine_run_executes_tickets_in_order, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_external_editor_gui.py:get_vscode_processes, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui_custom_window.py:test_app_window_is_borderless, tests/test_headless_simulation.py:module, tests/test_headless_verification.py:test_headless_verification_error_and_qa_interceptor, tests/test_headless_verification.py:test_headless_verification_full_run, tests/test_mock_gemini_cli.py:run_mock, tests/test_orchestration_logic.py:test_conductor_engine_run, tests/test_parallel_execution.py:test_conductor_engine_pool_integration, tests/test_sim_ai_settings.py:test_ai_settings_simulation_run, tests/test_sim_context.py:test_context_simulation_run, tests/test_sim_execution.py:test_execution_simulation_run, tests/test_sim_tools.py:test_tools_simulation_run]
+    [C: tests/conftest.py:kill_process_tree, tests/conftest.py:live_gui, tests/test_conductor_abort_event.py:test_conductor_abort_event_populated, tests/test_conductor_engine_v2.py:test_conductor_engine_dynamic_parsing_and_execution, tests/test_conductor_engine_v2.py:test_conductor_engine_run_executes_tickets_in_order, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_external_editor_gui.py:get_vscode_processes, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui_custom_window.py:test_app_window_is_borderless, tests/test_headless_simulation.py:module, tests/test_headless_verification.py:test_headless_verification_error_and_qa_interceptor, tests/test_headless_verification.py:test_headless_verification_full_run, tests/test_mock_gemini_cli.py:run_mock, tests/test_orchestration_logic.py:test_conductor_engine_run, tests/test_parallel_execution.py:test_conductor_engine_pool_integration, tests/test_sim_ai_settings.py:test_ai_settings_simulation_run, tests/test_sim_context.py:test_context_simulation_run, tests/test_sim_execution.py:test_execution_simulation_run, tests/test_sim_tools.py:test_tools_simulation_run]
   """
   print("\n--- Running Tools Simulation ---")
   # 1. Trigger list_directory tool
diff --git a/simulation/user_agent.py b/simulation/user_agent.py
index 558f962..7ec5928 100644
--- a/simulation/user_agent.py
+++ b/simulation/user_agent.py
@@ -23,7 +23,7 @@ class UserSimAgent:
 
  def wait_to_read(self, text: str) -> None:
   """
-  [C: simulation/workflow_sim.py:WorkflowSimulator.wait_for_ai_response]
+    [C: simulation/workflow_sim.py:WorkflowSimulator.wait_for_ai_response]
   """
   if self.enable_delays:
    delay = self.calculate_reading_delay(text)
@@ -31,7 +31,7 @@ class UserSimAgent:
 
  def wait_to_think(self, probability: float = 0.2, min_delay: float = 2.0, max_delay: float = 5.0) -> None:
   """
-  [C: simulation/workflow_sim.py:WorkflowSimulator.wait_for_ai_response]
+    [C: simulation/workflow_sim.py:WorkflowSimulator.wait_for_ai_response]
   """
   if self.enable_delays and random.random() < probability:
    delay = random.uniform(min_delay, max_delay)
@@ -39,7 +39,7 @@ class UserSimAgent:
 
  def simulate_typing(self, text: str, jitter_range: tuple[float, float] = (0.01, 0.05), batch_typing: bool = False) -> None:
   """
-  [C: simulation/workflow_sim.py:WorkflowSimulator.run_discussion_turn_async]
+    [C: simulation/workflow_sim.py:WorkflowSimulator.run_discussion_turn_async]
   """
   if not self.enable_delays:
    return
@@ -60,8 +60,9 @@ class UserSimAgent:
  def generate_response(self, conversation_history: list[dict]) -> str:
   """
   
-    Generates a human-like response based on the conversation history.
-    conversation_history: list of dicts with 'role' and 'content'
+    
+      Generates a human-like response based on the conversation history.
+      conversation_history: list of dicts with 'role' and 'content'
     [C: simulation/workflow_sim.py:WorkflowSimulator.run_discussion_turn_async]
   """
   last_ai_msg = ""
@@ -79,7 +80,8 @@ class UserSimAgent:
  def perform_action_with_delay(self, action_func: Callable, *args: Any, **kwargs: Any) -> Any:
   """
   
-    Executes an action with a human-like delay if enabled.
+    
+      Executes an action with a human-like delay if enabled.
     [C: tests/test_user_agent.py:test_perform_action_with_delay]
   """
   if self.enable_delays:
diff --git a/simulation/workflow_sim.py b/simulation/workflow_sim.py
index d9f46f7..6f5eb03 100644
--- a/simulation/workflow_sim.py
+++ b/simulation/workflow_sim.py
@@ -50,7 +50,7 @@ class WorkflowSimulator:
 
  def setup_new_project(self, name: str, git_dir: str, project_path: str = None) -> None:
   """
-  [C: tests/test_workflow_sim.py:test_setup_new_project]
+    [C: tests/test_workflow_sim.py:test_setup_new_project]
   """
   print(f"Setting up new project: {name}")
   if project_path:
@@ -66,7 +66,7 @@ class WorkflowSimulator:
 
  def create_discussion(self, name: str) -> None:
   """
-  [C: tests/test_workflow_sim.py:test_discussion_switching]
+    [C: tests/test_workflow_sim.py:test_discussion_switching]
   """
   print(f"Creating discussion: {name}")
   self.client.set_value("disc_new_name_input", name)
@@ -76,7 +76,7 @@ class WorkflowSimulator:
 
  def switch_discussion(self, name: str) -> None:
   """
-  [C: tests/test_workflow_sim.py:test_discussion_switching]
+    [C: tests/test_workflow_sim.py:test_discussion_switching]
   """
   print(f"Switching to discussion: {name}")
   self.client.select_list_item("disc_listbox", name)
@@ -91,7 +91,7 @@ class WorkflowSimulator:
 
  def truncate_history(self, pairs: int) -> None:
   """
-  [C: tests/test_workflow_sim.py:test_history_truncation]
+    [C: tests/test_workflow_sim.py:test_history_truncation]
   """
   print(f"Truncating history to {pairs} pairs")
   self.client.set_value("disc_truncate_pairs", pairs)
diff --git a/src/aggregate.py b/src/aggregate.py
index 97920c0..6302b84 100644
--- a/src/aggregate.py
+++ b/src/aggregate.py
@@ -61,7 +61,10 @@ def resolve_paths(base_dir: Path, entry: str) -> list[Path]:
  return sorted(filtered)
 
 def group_files_by_dir(files: list[Any]) -> dict[str, list[Any]]:
- """Groups FileItem objects by their relative directory path."""
+ """
+ Groups FileItem objects by their relative directory path.
+  [C: src/gui_2.py:App._render_context_files_table, tests/test_context_composition_phase3.py:test_group_files_by_dir]
+ """
  grouped = {}
  for f in files:
   path_str = f.path if hasattr(f, 'path') else str(f)
@@ -76,7 +79,10 @@ def group_files_by_dir(files: list[Any]) -> dict[str, list[Any]]:
  return grouped
 
 def compute_file_stats(abs_path: str) -> dict[str, int]:
- """Computes lines and basic AST stats for a file."""
+ """
+ Computes lines and basic AST stats for a file.
+  [C: src/gui_2.py:App._stats_worker, tests/test_context_composition_phase3.py:test_compute_file_stats]
+ """
  stats = {"lines": 0, "ast_elements": 0}
  try:
   with open(abs_path, 'r', encoding='utf-8') as f:
@@ -97,8 +103,9 @@ def build_discussion_section(history: list[Any]) -> str:
  """
  
   
-      Builds a markdown section for discussion history.
-      Handles both legacy list[str] and new list[dict].
+   
+       Builds a markdown section for discussion history.
+       Handles both legacy list[str] and new list[dict].
  """
  sections = []
  for i, entry in enumerate(history, start=1):
@@ -133,20 +140,21 @@ def build_file_items(base_dir: Path, files: list[str | dict[str, Any]]) -> list[
  """
  
   
-      Return a list of dicts describing each file, for use by ai_client when it
-      wants to upload individual files rather than inline everything as markdown.
-  
-      Each dict has:
-          path           : Path  (resolved absolute path)
-          entry          : str   (original config entry string)
-          content        : str   (file text, or error string)
-          error          : bool
-          mtime          : float (last modification time, for skip-if-unchanged optimization)
-          tier           : int | None (optional tier for context management)
-          auto_aggregate : bool
-          force_full     : bool
-          view_mode      : str   (summary, full, skeleton, outline, none)
-  [C: src/app_controller.py:AppController._bg_task, src/orchestrator_pm.py:module, tests/test_aggregate_flags.py:test_auto_aggregate_skip, tests/test_aggregate_flags.py:test_force_full, tests/test_tiered_context.py:test_build_file_items_with_tiers]
+   
+       Return a list of dicts describing each file, for use by ai_client when it
+       wants to upload individual files rather than inline everything as markdown.
+   
+       Each dict has:
+           path           : Path  (resolved absolute path)
+           entry          : str   (original config entry string)
+           content        : str   (file text, or error string)
+           error          : bool
+           mtime          : float (last modification time, for skip-if-unchanged optimization)
+           tier           : int | None (optional tier for context management)
+           auto_aggregate : bool
+           force_full     : bool
+           view_mode      : str   (summary, full, skeleton, outline, none)
+  [C: src/app_controller.py:AppController._bg_task, src/orchestrator_pm.py:module, tests/test_aggregate_flags.py:test_auto_aggregate_skip, tests/test_aggregate_flags.py:test_force_full, tests/test_context_composition_phase6.py:test_view_mode_custom, tests/test_context_composition_phase6.py:test_view_mode_custom_empty_default_to_summary, tests/test_context_composition_phase6.py:test_view_mode_default_summary, tests/test_context_composition_phase6.py:test_view_mode_full, tests/test_context_composition_phase6.py:test_view_mode_none, tests/test_context_composition_phase6.py:test_view_mode_outline, tests/test_context_composition_phase6.py:test_view_mode_skeleton, tests/test_context_composition_phase6.py:test_view_mode_summary, tests/test_tiered_context.py:test_build_file_items_with_tiers, tests/test_tiered_context.py:test_build_files_section_with_dicts]
  """
  with get_monitor().scope("build_file_items"):
   items: list[dict[str, Any]] = []
@@ -245,8 +253,9 @@ def build_file_items(base_dir: Path, files: list[str | dict[str, Any]]) -> list[
 def _build_files_section_from_items(file_items: list[dict[str, Any]]) -> str:
  """
  
-  Build the files markdown section from pre-read file items (avoids double I/O).
-  [C: tests/test_aggregate_flags.py:test_auto_aggregate_skip, tests/test_ui_summary_only_removal.py:test_aggregate_from_items_respects_auto_aggregate]
+  
+   Build the files markdown section from pre-read file items (avoids double I/O).
+  [C: tests/test_aggregate_flags.py:test_auto_aggregate_skip, tests/test_context_composition_phase6.py:test_files_section_rendering, tests/test_tiered_context.py:test_build_files_section_with_dicts, tests/test_ui_summary_only_removal.py:test_aggregate_from_items_respects_auto_aggregate]
  """
  sections = []
  for item in file_items:
@@ -323,7 +332,8 @@ def build_markdown_from_items(file_items: list[dict[str, Any]], screenshot_base_
 def build_markdown_no_history(file_items: list[dict[str, Any]], screenshot_base_dir: Path, screenshots: list[str], summary_only: bool = False, aggregation_strategy: str = "auto") -> str:
  """
  
-  Build markdown with only files + screenshots (no history). Used for stable caching.
+  
+   Build markdown with only files + screenshots (no history). Used for stable caching.
   [C: src/app_controller.py:AppController._do_generate, tests/test_history_management.py:test_aggregate_blacklist]
  """
  return build_markdown_from_items(file_items, screenshot_base_dir, screenshots, history=[], summary_only=summary_only, aggregation_strategy=aggregation_strategy)
@@ -331,7 +341,8 @@ def build_markdown_no_history(file_items: list[dict[str, Any]], screenshot_base_
 def build_discussion_text(history: list[str]) -> str:
  """
  
-  Build just the discussion history section text. Returns empty string if no history.
+  
+   Build just the discussion history section text. Returns empty string if no history.
   [C: src/app_controller.py:AppController._do_generate, tests/test_history_management.py:test_aggregate_includes_segregated_history]
  """
  if not history:
@@ -342,9 +353,10 @@ def build_tier3_context(file_items: list[dict[str, Any]], screenshot_base_dir: P
  """
  
   
-      Tier 3 Context: Execution/Worker.
-      Full content for focus_files and files with tier=3, summaries/skeletons for others.
-  [C: tests/test_aggregate_flags.py:test_auto_aggregate_skip, tests/test_aggregate_flags.py:test_force_full, tests/test_perf_aggregate.py:test_build_tier3_context_scaling, tests/test_tiered_context.py:test_build_tier3_context_ast_skeleton, tests/test_tiered_context.py:test_build_tier3_context_exists, tests/test_tiered_context.py:test_tiered_context_by_tier_field]
+   
+       Tier 3 Context: Execution/Worker.
+       Full content for focus_files and files with tier=3, summaries/skeletons for others.
+  [C: tests/test_aggregate_flags.py:test_auto_aggregate_skip, tests/test_aggregate_flags.py:test_force_full, tests/test_ast_masking_core.py:test_ast_masking_gencpp_samples, tests/test_gencpp_full_suite.py:test_gencpp_full_suite, tests/test_perf_aggregate.py:test_build_tier3_context_scaling, tests/test_tiered_context.py:test_build_tier3_context_ast_skeleton, tests/test_tiered_context.py:test_build_tier3_context_exists, tests/test_tiered_context.py:test_tiered_context_by_tier_field]
  """
  with get_monitor().scope("build_tier3_context"):
   focus_set = set(focus_files)
@@ -446,7 +458,7 @@ def build_markdown(base_dir: Path, files: list[str | dict[str, Any]], screenshot
 
 def run(config: dict[str, Any], aggregation_strategy: str = "auto") -> tuple[str, Path, list[dict[str, Any]]]:
  """
-  [C: simulation/sim_base.py:run_sim, src/ai_client.py:_send_anthropic, src/ai_client.py:_send_deepseek, src/ai_client.py:_send_gemini, src/ai_client.py:_send_gemini_cli, src/ai_client.py:_send_minimax, src/app_controller.py:AppController._cb_start_track, src/app_controller.py:AppController._do_generate, src/app_controller.py:AppController._process_event_queue, src/app_controller.py:AppController._start_track_logic, src/external_editor.py:_find_vscode_in_registry, src/gui_2.py:App._render_snapshot_tab, src/gui_2.py:App.run, src/gui_2.py:main, src/mcp_client.py:get_git_diff, src/project_manager.py:get_git_commit, src/project_manager.py:get_git_log, src/rag_engine.py:RAGEngine._search_mcp, src/shell_runner.py:run_powershell, tests/conftest.py:kill_process_tree, tests/conftest.py:live_gui, tests/test_conductor_abort_event.py:test_conductor_abort_event_populated, tests/test_conductor_engine_v2.py:test_conductor_engine_dynamic_parsing_and_execution, tests/test_conductor_engine_v2.py:test_conductor_engine_run_executes_tickets_in_order, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_external_editor_gui.py:get_vscode_processes, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui_custom_window.py:test_app_window_is_borderless, tests/test_headless_simulation.py:module, tests/test_headless_verification.py:test_headless_verification_error_and_qa_interceptor, tests/test_headless_verification.py:test_headless_verification_full_run, tests/test_mock_gemini_cli.py:run_mock, tests/test_orchestration_logic.py:test_conductor_engine_run, tests/test_parallel_execution.py:test_conductor_engine_pool_integration, tests/test_sim_ai_settings.py:test_ai_settings_simulation_run, tests/test_sim_context.py:test_context_simulation_run, tests/test_sim_execution.py:test_execution_simulation_run, tests/test_sim_tools.py:test_tools_simulation_run]
+  [C: simulation/sim_base.py:run_sim, src/ai_client.py:_send_anthropic, src/ai_client.py:_send_deepseek, src/ai_client.py:_send_gemini, src/ai_client.py:_send_gemini_cli, src/ai_client.py:_send_minimax, src/app_controller.py:AppController._cb_start_track, src/app_controller.py:AppController._do_generate, src/app_controller.py:AppController._process_event_queue, src/app_controller.py:AppController._start_track_logic, src/external_editor.py:_find_vscode_in_registry, src/gui_2.py:App._render_snapshot_tab, src/gui_2.py:App.run, src/gui_2.py:main, src/mcp_client.py:get_git_diff, src/project_manager.py:get_git_commit, src/rag_engine.py:RAGEngine._search_mcp, src/shell_runner.py:run_powershell, tests/conftest.py:kill_process_tree, tests/conftest.py:live_gui, tests/test_conductor_abort_event.py:test_conductor_abort_event_populated, tests/test_conductor_engine_v2.py:test_conductor_engine_dynamic_parsing_and_execution, tests/test_conductor_engine_v2.py:test_conductor_engine_run_executes_tickets_in_order, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_external_editor_gui.py:get_vscode_processes, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui_custom_window.py:test_app_window_is_borderless, tests/test_headless_simulation.py:module, tests/test_headless_verification.py:test_headless_verification_error_and_qa_interceptor, tests/test_headless_verification.py:test_headless_verification_full_run, tests/test_mock_gemini_cli.py:run_mock, tests/test_orchestration_logic.py:test_conductor_engine_run, tests/test_parallel_execution.py:test_conductor_engine_pool_integration, tests/test_sim_ai_settings.py:test_ai_settings_simulation_run, tests/test_sim_context.py:test_context_simulation_run, tests/test_sim_execution.py:test_execution_simulation_run, tests/test_sim_tools.py:test_tools_simulation_run]
  """
  namespace = config.get("project", {}).get("name")
  if not namespace:
@@ -472,7 +484,7 @@ def run(config: dict[str, Any], aggregation_strategy: str = "auto") -> tuple[str
 def main() -> None:
  # Load global config to find active project
  """
-  [C: simulation/live_walkthrough.py:module, simulation/ping_pong.py:module, src/api_hooks.py:WebSocketServer._run_loop, src/gui_2.py:module, tests/mock_concurrent_mma.py:module, tests/mock_gemini_cli.py:module, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_allow_decision, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_deny_decision, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_unreachable_hook_server, tests/test_cli_tool_bridge.py:module, tests/test_cli_tool_bridge_mapping.py:TestCliToolBridgeMapping.test_mapping_from_api_format, tests/test_cli_tool_bridge_mapping.py:module, tests/test_discussion_takes.py:module, tests/test_external_editor_gui.py:module, tests/test_headless_service.py:TestHeadlessStartup.test_headless_flag_triggers_run, tests/test_headless_service.py:TestHeadlessStartup.test_normal_startup_calls_app_run, tests/test_mma_skeleton.py:module, tests/test_orchestrator_pm.py:module, tests/test_orchestrator_pm_history.py:module, tests/test_post_process.py:module, tests/test_presets.py:module, tests/test_project_serialization.py:module, tests/test_run_worker_lifecycle_abort.py:module, tests/test_symbol_lookup.py:module, tests/test_system_prompt_exposure.py:module, tests/test_theme_nerv_fx.py:module]
+  [C: simulation/live_walkthrough.py:module, simulation/ping_pong.py:module, src/ai_server.py:module, src/api_hooks.py:WebSocketServer._run_loop, src/gui_2.py:module, tests/mock_concurrent_mma.py:module, tests/mock_gemini_cli.py:module, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_allow_decision, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_deny_decision, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_unreachable_hook_server, tests/test_cli_tool_bridge.py:module, tests/test_cli_tool_bridge_mapping.py:TestCliToolBridgeMapping.test_mapping_from_api_format, tests/test_cli_tool_bridge_mapping.py:module, tests/test_discussion_takes.py:module, tests/test_external_editor_gui.py:module, tests/test_headless_service.py:TestHeadlessStartup.test_headless_flag_triggers_run, tests/test_headless_service.py:TestHeadlessStartup.test_normal_startup_calls_app_run, tests/test_mma_skeleton.py:module, tests/test_orchestrator_pm.py:module, tests/test_orchestrator_pm_history.py:module, tests/test_presets.py:module, tests/test_project_serialization.py:module, tests/test_run_worker_lifecycle_abort.py:module, tests/test_symbol_lookup.py:module, tests/test_system_prompt_exposure.py:module, tests/test_theme_nerv_fx.py:module]
  """
  from src.paths import get_config_path
  config_path = get_config_path()
diff --git a/src/ai_client.py b/src/ai_client.py
index aad96c2..0b8493f 100644
--- a/src/ai_client.py
+++ b/src/ai_client.py
@@ -53,12 +53,18 @@ events: EventEmitter = EventEmitter()
 
 class ProviderError(Exception):
  def __init__(self, kind: str, provider: str, original: Exception) -> None:
+  """
+  [C: src/api_hooks.py:HookServerInstance.__init__, src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+  """
   self.kind = kind
   self.provider = provider
   self.original = original
   super().__init__(str(original))
 
  def ui_message(self) -> str:
+  """
+  [C: src/app_controller.py:AppController._handle_request_event, src/app_controller.py:_api_generate]
+  """
   labels = {
    "quota":      "QUOTA EXHAUSTED",
    "rate_limit": "RATE LIMITED",
@@ -74,8 +80,9 @@ class ProviderError(Exception):
 
 def set_model_params(temp: float, max_tok: int, trunc_limit: int = 8000, top_p: float = 1.0) -> None:
  """
- Sets global generation parameters like temperature and max tokens.
-  [C: src/app_controller.py:AppController._handle_request_event, src/app_controller.py:AppController.generate]
+ 
+  Sets global generation parameters like temperature and max tokens.
+  [C: src/app_controller.py:AppController._handle_request_event, src/app_controller.py:_api_generate]
  """
  global _temperature, _max_tokens, _history_trunc_limit, _top_p
  _temperature = temp
@@ -130,21 +137,24 @@ _tool_approval_modes: dict[str, str] = {}
 
 def get_current_tier() -> Optional[str]:
  """
- Returns the current tier from thread-local storage.
+ 
+  Returns the current tier from thread-local storage.
   [C: src/app_controller.py:AppController._on_tool_log, tests/test_ai_client_concurrency.py:intercepted_append]
  """
  return getattr(_local_storage, "current_tier", None)
 
 def set_current_tier(tier: Optional[str]) -> None:
  """
- Sets the current tier in thread-local storage.
+ 
+  Sets the current tier in thread-local storage.
   [C: src/app_controller.py:AppController._handle_request_event, src/conductor_tech_lead.py:generate_tickets, src/multi_agent_conductor.py:run_worker_lifecycle, tests/test_ai_client_concurrency.py:run_t1, tests/test_ai_client_concurrency.py:run_t2, tests/test_mma_agent_focus_phase1.py:reset_tier, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_none_when_unset, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_set_when_current_tier_set, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_tier2]
  """
  _local_storage.current_tier = tier
 
 def get_comms_log_callback() -> Optional[Callable[[dict[str, Any]], None]]:
  """
- Returns the comms log callback (thread-local with global fallback).
+ 
+  Returns the comms log callback (thread-local with global fallback).
   [C: src/multi_agent_conductor.py:run_worker_lifecycle]
  """
  tl_cb = getattr(_local_storage, "comms_log_callback", None)
@@ -153,7 +163,8 @@ def get_comms_log_callback() -> Optional[Callable[[dict[str, Any]], None]]:
 
 def set_comms_log_callback(cb: Optional[Callable[[dict[str, Any]], None]]) -> None:
  """
- Sets the comms log callback (both global and thread-local).
+ 
+  Sets the comms log callback (both global and thread-local).
   [C: src/app_controller.py:AppController._init_ai_and_hooks, src/multi_agent_conductor.py:run_worker_lifecycle]
  """
  global comms_log_callback
@@ -196,29 +207,30 @@ _project_context_marker: str = ""
 
 def set_custom_system_prompt(prompt: str) -> None:
  """
- Sets a custom system prompt to be combined with the default instructions.
-  [C: simulation/user_agent.py:UserSimAgent.generate_response, src/app_controller.py:AppController._do_generate, src/app_controller.py:AppController._handle_request_event, src/app_controller.py:AppController.generate, src/conductor_tech_lead.py:generate_tickets, src/multi_agent_conductor.py:run_worker_lifecycle, src/orchestrator_pm.py:generate_tracks, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.setUp]
+ 
+  Sets a custom system prompt to be combined with the default instructions.
+  [C: simulation/user_agent.py:UserSimAgent.generate_response, src/app_controller.py:AppController._do_generate, src/app_controller.py:AppController._handle_request_event, src/app_controller.py:_api_generate, src/conductor_tech_lead.py:generate_tickets, src/multi_agent_conductor.py:run_worker_lifecycle, src/orchestrator_pm.py:generate_tracks, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.setUp]
  """
  global _custom_system_prompt
  _custom_system_prompt = prompt
 
 def set_base_system_prompt(prompt: str) -> None:
  """
- [C: src/app_controller.py:AppController._do_generate, src/app_controller.py:AppController._handle_request_event, src/app_controller.py:AppController.generate, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.setUp, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.test_ai_client_get_combined_respects_use_default, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.test_ai_client_set_base_overrides_when_default_false]
+  [C: src/app_controller.py:AppController._do_generate, src/app_controller.py:AppController._handle_request_event, src/app_controller.py:_api_generate, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.setUp, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.test_ai_client_get_combined_respects_use_default, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.test_ai_client_set_base_overrides_when_default_false]
  """
  global _base_system_prompt_override
  _base_system_prompt_override = prompt
 
 def set_use_default_base_prompt(use_default: bool) -> None:
  """
- [C: src/app_controller.py:AppController._do_generate, src/app_controller.py:AppController._handle_request_event, src/app_controller.py:AppController.generate, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.setUp, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.test_ai_client_get_combined_respects_use_default, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.test_ai_client_set_base_overrides_when_default_false]
+  [C: src/app_controller.py:AppController._do_generate, src/app_controller.py:AppController._handle_request_event, src/app_controller.py:_api_generate, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.setUp, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.test_ai_client_get_combined_respects_use_default, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.test_ai_client_set_base_overrides_when_default_false]
  """
  global _use_default_base_system_prompt
  _use_default_base_system_prompt = use_default
 
 def set_project_context_marker(marker: str) -> None:
  """
- [C: src/app_controller.py:AppController._do_generate, src/app_controller.py:AppController._handle_request_event, src/app_controller.py:AppController.generate]
+  [C: src/app_controller.py:AppController._do_generate, src/app_controller.py:AppController._handle_request_event, src/app_controller.py:_api_generate]
  """
  global _project_context_marker
  _project_context_marker = marker
@@ -228,7 +240,7 @@ def _get_context_marker() -> str:
 
 def _get_combined_system_prompt(preset: Optional[ToolPreset] = None, bias: Optional[BiasProfile] = None) -> str:
  """
- [C: tests/test_bias_efficacy.py:test_bias_efficacy_prompt_generation, tests/test_bias_integration.py:test_system_prompt_biasing, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.test_ai_client_get_combined_respects_use_default, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.test_ai_client_set_base_overrides_when_default_false]
+  [C: tests/test_bias_efficacy.py:test_bias_efficacy_prompt_generation, tests/test_bias_integration.py:test_system_prompt_biasing, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.test_ai_client_get_combined_respects_use_default, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.test_ai_client_set_base_overrides_when_default_false]
  """
  if preset is None: preset = _active_tool_preset
  if bias is None: bias = _active_bias_profile
@@ -246,7 +258,7 @@ def _get_combined_system_prompt(preset: Optional[ToolPreset] = None, bias: Optio
 
 def get_combined_system_prompt(preset: Optional[ToolPreset] = None, bias: Optional[BiasProfile] = None) -> str:
  """
- [C: src/app_controller.py:AppController._do_generate, src/app_controller.py:AppController._handle_request_event]
+  [C: src/app_controller.py:AppController._do_generate, src/app_controller.py:AppController._handle_request_event]
  """
  return _get_combined_system_prompt(preset, bias)
 
@@ -260,7 +272,7 @@ COMMS_CLAMP_CHARS: int = 300
 
 def _append_comms(direction: str, kind: str, payload: dict[str, Any]) -> None:
  """
- [C: tests/test_ai_client_concurrency.py:run_t1, tests/test_ai_client_concurrency.py:run_t2, tests/test_mma_agent_focus_phase1.py:test_append_comms_has_source_tier_key, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_none_when_unset, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_set_when_current_tier_set, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_tier2]
+  [C: tests/test_ai_client_concurrency.py:run_t1, tests/test_ai_client_concurrency.py:run_t2, tests/test_mma_agent_focus_phase1.py:test_append_comms_has_source_tier_key, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_none_when_unset, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_set_when_current_tier_set, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_tier2]
  """
  entry: dict[str, Any] = {
   "ts":          datetime.datetime.now().strftime("%H:%M:%S"),
@@ -279,25 +291,25 @@ def _append_comms(direction: str, kind: str, payload: dict[str, Any]) -> None:
 
 def get_comms_log() -> list[dict[str, Any]]:
  """
- [C: src/app_controller.py:AppController._bg_task, src/app_controller.py:AppController._recalculate_session_usage, src/app_controller.py:AppController._start_track_logic, src/multi_agent_conductor.py:run_worker_lifecycle, tests/test_mma_agent_focus_phase1.py:test_append_comms_has_source_tier_key, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_none_when_unset, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_set_when_current_tier_set, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_tier2, tests/test_token_usage.py:test_token_usage_tracking]
+  [C: src/app_controller.py:AppController._bg_task, src/app_controller.py:AppController._recalculate_session_usage, src/app_controller.py:AppController._start_track_logic, src/multi_agent_conductor.py:run_worker_lifecycle, tests/test_mma_agent_focus_phase1.py:test_append_comms_has_source_tier_key, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_none_when_unset, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_set_when_current_tier_set, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_tier2, tests/test_token_usage.py:test_token_usage_tracking]
  """
  return list(_comms_log)
 
 def clear_comms_log() -> None:
  """
- [C: src/app_controller.py:AppController._handle_reset_session, src/gui_2.py:App._render_comms_history_panel, src/gui_2.py:App._show_menus, tests/test_ai_client_concurrency.py:test_ai_client_tier_isolation, tests/test_token_usage.py:test_token_usage_tracking]
+  [C: src/app_controller.py:AppController._handle_reset_session, src/gui_2.py:App._render_comms_history_panel, src/gui_2.py:App._show_menus, tests/test_ai_client_concurrency.py:test_ai_client_tier_isolation, tests/test_token_usage.py:test_token_usage_tracking]
  """
  _comms_log.clear()
 
 def get_credentials_path() -> Path:
  """
- [C: src/mcp_client.py:_is_allowed]
+  [C: src/mcp_client.py:_is_allowed]
  """
  return Path(os.environ.get("SLOP_CREDENTIALS", str(Path(__file__).parent.parent / "credentials.toml")))
 
 def _load_credentials() -> dict[str, Any]:
  """
- [C: tests/test_deepseek_infra.py:test_credentials_error_mentions_deepseek, tests/test_minimax_provider.py:test_minimax_credentials_template]
+  [C: src/ai_server.py:_send_anthropic, src/ai_server.py:_send_deepseek, src/ai_server.py:_send_gemini, src/ai_server.py:_send_minimax, src/ai_server.py:handle_command, tests/test_deepseek_infra.py:test_credentials_error_mentions_deepseek, tests/test_minimax_provider.py:test_minimax_credentials_template]
  """
  cred_path = get_credentials_path()
  try:
@@ -433,7 +445,8 @@ def _classify_minimax_error(exc: Exception) -> ProviderError:
 
 def set_provider(provider: str, model: str) -> None:
  """
- Updates the active LLM provider and model name.
+ 
+  Updates the active LLM provider and model name.
   [C: src/app_controller.py:AppController._handle_reset_session, src/app_controller.py:AppController._init_ai_and_hooks, src/app_controller.py:AppController.current_model, src/app_controller.py:AppController.current_provider, src/app_controller.py:AppController.do_fetch, src/multi_agent_conductor.py:run_worker_lifecycle, src/orchestrator_pm.py:generate_tracks, tests/conftest.py:reset_ai_client, tests/test_ai_cache_tracking.py:test_gemini_cache_tracking, tests/test_ai_client_cli.py:test_ai_client_send_gemini_cli, tests/test_api_events.py:test_send_emits_events_proper, tests/test_api_events.py:test_send_emits_tool_events, tests/test_deepseek_provider.py:test_deepseek_completion_logic, tests/test_deepseek_provider.py:test_deepseek_model_selection, tests/test_deepseek_provider.py:test_deepseek_payload_verification, tests/test_deepseek_provider.py:test_deepseek_reasoner_payload_verification, tests/test_deepseek_provider.py:test_deepseek_reasoning_logic, tests/test_deepseek_provider.py:test_deepseek_streaming, tests/test_deepseek_provider.py:test_deepseek_tool_calling, tests/test_gemini_cli_edge_cases.py:test_gemini_cli_loop_termination, tests/test_gemini_cli_integration.py:test_gemini_cli_full_integration, tests/test_gemini_cli_integration.py:test_gemini_cli_rejection_and_history, tests/test_gemini_cli_parity_regression.py:test_send_invokes_adapter_send, tests/test_gui2_mcp.py:test_mcp_tool_call_is_dispatched, tests/test_minimax_provider.py:test_minimax_default_model, tests/test_minimax_provider.py:test_minimax_model_selection, tests/test_mma_agent_focus_phase1.py:test_append_comms_has_source_tier_key, tests/test_rag_integration.py:test_rag_integration, tests/test_tier4_interceptor.py:test_ai_client_passes_qa_callback, tests/test_tier4_interceptor.py:test_gemini_provider_passes_qa_callback_to_run_script, tests/test_token_usage.py:test_token_usage_tracking]
  """
  global _provider, _model
@@ -459,14 +472,16 @@ def set_provider(provider: str, model: str) -> None:
 
 def get_provider() -> str:
  """
- Returns the current active provider name.
+ 
+  Returns the current active provider name.
   [C: src/multi_agent_conductor.py:run_worker_lifecycle]
  """
  return _provider
 
 def cleanup() -> None:
  """
- Performs cleanup operations like deleting server-side Gemini caches.
+ 
+  Performs cleanup operations like deleting server-side Gemini caches.
   [C: src/app_controller.py:AppController.clear_cache, src/app_controller.py:AppController.shutdown, tests/test_ai_cache_tracking.py:test_gemini_cache_tracking_cleanup, tests/test_log_registry.py:TestLogRegistry.tearDown, tests/test_project_serialization.py:TestProjectSerialization.tearDown]
  """
  global _gemini_client, _gemini_cache, _gemini_cached_file_paths
@@ -479,8 +494,9 @@ def cleanup() -> None:
 
 def reset_session() -> None:
  """
- Clears conversation history and resets provider-specific session state.
-  [C: src/app_controller.py:AppController._handle_reset_session, src/app_controller.py:AppController.current_model, src/app_controller.py:AppController.current_provider, src/app_controller.py:AppController.init_state, src/gui_2.py:App._render_provider_panel, src/gui_2.py:App._show_menus, src/multi_agent_conductor.py:run_worker_lifecycle, tests/conftest.py:live_gui, tests/conftest.py:reset_ai_client, tests/test_ai_cache_tracking.py:test_gemini_cache_tracking, tests/test_ai_client_cli.py:test_ai_client_send_gemini_cli, tests/test_api_events.py:test_send_emits_events_proper, tests/test_api_events.py:test_send_emits_tool_events, tests/test_deepseek_provider.py:test_deepseek_payload_verification, tests/test_deepseek_provider.py:test_deepseek_reasoner_payload_verification, tests/test_gemini_cli_integration.py:test_gemini_cli_full_integration, tests/test_gemini_cli_integration.py:test_gemini_cli_rejection_and_history, tests/test_gemini_metrics.py:test_get_gemini_cache_stats_with_mock_client, tests/test_headless_simulation.py:test_mma_track_lifecycle_simulation, tests/test_minimax_provider.py:test_minimax_history_bleed_stats, tests/test_mma_agent_focus_phase1.py:test_append_comms_has_source_tier_key, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_none_when_unset, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_set_when_current_tier_set, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_tier2, tests/test_session_logger_reset.py:test_reset_session, tests/test_token_usage.py:test_token_usage_tracking]
+ 
+  Clears conversation history and resets provider-specific session state.
+  [C: src/app_controller.py:AppController._handle_reset_session, src/app_controller.py:AppController.current_model, src/app_controller.py:AppController.current_provider, src/app_controller.py:AppController.init_state, src/gui_2.py:App._render_provider_panel, src/gui_2.py:App._show_menus, src/multi_agent_conductor.py:run_worker_lifecycle, tests/conftest.py:live_gui, tests/conftest.py:reset_ai_client, tests/test_ai_cache_tracking.py:test_gemini_cache_tracking, tests/test_ai_client_cli.py:test_ai_client_send_gemini_cli, tests/test_api_events.py:test_send_emits_events_proper, tests/test_api_events.py:test_send_emits_tool_events, tests/test_deepseek_provider.py:test_deepseek_payload_verification, tests/test_deepseek_provider.py:test_deepseek_reasoner_payload_verification, tests/test_gemini_cli_integration.py:test_gemini_cli_full_integration, tests/test_gemini_cli_integration.py:test_gemini_cli_rejection_and_history, tests/test_gemini_metrics.py:test_get_gemini_cache_stats_with_mock_client, tests/test_headless_simulation.py:test_mma_track_lifecycle_simulation, tests/test_mma_agent_focus_phase1.py:test_append_comms_has_source_tier_key, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_none_when_unset, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_set_when_current_tier_set, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_tier2, tests/test_session_logger_reset.py:test_reset_session, tests/test_token_usage.py:test_token_usage_tracking]
  """
  global _gemini_client, _gemini_chat, _gemini_cache
  global _gemini_cache_md_hash, _gemini_cache_created_at, _gemini_cached_file_paths
@@ -521,7 +537,7 @@ def reset_session() -> None:
 
 def list_models(provider: str) -> list[str]:
     """
-    [C: src/app_controller.py:AppController.do_fetch, tests/test_agent_capabilities.py:test_agent_capabilities_listing, tests/test_ai_client_list_models.py:test_list_models_gemini_cli, tests/test_deepseek_infra.py:test_deepseek_model_listing, tests/test_minimax_provider.py:test_minimax_list_models]
+        [C: src/app_controller.py:AppController.do_fetch, tests/test_agent_capabilities.py:test_agent_capabilities_listing, tests/test_ai_client_list_models.py:test_list_models_gemini_cli, tests/test_deepseek_infra.py:test_deepseek_model_listing, tests/test_minimax_provider.py:test_minimax_list_models]
     """
     creds = _load_credentials()
     if provider == "gemini":
@@ -546,8 +562,9 @@ _agent_tools: dict[str, bool] = {}
 
 def set_agent_tools(tools: dict[str, bool]) -> None:
  """
- Configures which tools are enabled for the AI agent.
-  [C: src/app_controller.py:AppController._handle_request_event, src/app_controller.py:AppController.generate, tests/test_agent_tools_wiring.py:test_build_anthropic_tools_conversion, tests/test_agent_tools_wiring.py:test_set_agent_tools, tests/test_tool_access_exclusion.py:test_build_anthropic_tools_excludes_disabled, tests/test_tool_access_exclusion.py:test_build_deepseek_tools_excludes_disabled, tests/test_tool_access_exclusion.py:test_gemini_tool_declaration_excludes_disabled, tests/test_tool_access_exclusion.py:test_set_agent_tools_clears_caches]
+ 
+  Configures which tools are enabled for the AI agent.
+  [C: src/app_controller.py:AppController._handle_request_event, src/app_controller.py:_api_generate, tests/test_agent_tools_wiring.py:test_build_anthropic_tools_conversion, tests/test_agent_tools_wiring.py:test_set_agent_tools, tests/test_tool_access_exclusion.py:test_build_anthropic_tools_excludes_disabled, tests/test_tool_access_exclusion.py:test_build_deepseek_tools_excludes_disabled, tests/test_tool_access_exclusion.py:test_gemini_tool_declaration_excludes_disabled, tests/test_tool_access_exclusion.py:test_set_agent_tools_clears_caches]
  """
  global _agent_tools, _CACHED_ANTHROPIC_TOOLS, _CACHED_DEEPSEEK_TOOLS
  _agent_tools = tools
@@ -556,7 +573,8 @@ def set_agent_tools(tools: dict[str, bool]) -> None:
 
 def set_tool_preset(preset_name: Optional[str]) -> None:
  """
- Loads a tool preset and applies it via set_agent_tools.
+ 
+  Loads a tool preset and applies it via set_agent_tools.
   [C: src/app_controller.py:AppController.init_state, src/gui_2.py:App._render_persona_selector_panel, src/multi_agent_conductor.py:run_worker_lifecycle, tests/test_bias_integration.py:test_set_tool_preset_with_objects, tests/test_tool_preset_env.py:test_tool_preset_env_loading, tests/test_tool_preset_env.py:test_tool_preset_env_no_var, tests/test_tool_presets_execution.py:test_tool_ask_approval, tests/test_tool_presets_execution.py:test_tool_auto_approval, tests/test_tool_presets_execution.py:test_tool_rejection]
  """
  global _agent_tools, _CACHED_ANTHROPIC_TOOLS, _CACHED_DEEPSEEK_TOOLS, _tool_approval_modes, _active_tool_preset
@@ -590,7 +608,8 @@ def set_tool_preset(preset_name: Optional[str]) -> None:
 
 def set_bias_profile(profile_name: Optional[str]) -> None:
  """
- Sets the active tool bias profile for tuning model behavior.
+ 
+  Sets the active tool bias profile for tuning model behavior.
   [C: src/app_controller.py:AppController.init_state, src/gui_2.py:App._render_agent_tools_panel, src/gui_2.py:App._render_persona_selector_panel, src/multi_agent_conductor.py:run_worker_lifecycle]
  """
  global _active_bias_profile
@@ -613,7 +632,7 @@ def get_bias_profile() -> Optional[str]:
 
 def _build_anthropic_tools() -> list[dict[str, Any]]:
  """
- [C: tests/test_agent_tools_wiring.py:test_build_anthropic_tools_conversion, tests/test_tool_access_exclusion.py:test_build_anthropic_tools_excludes_disabled]
+  [C: tests/test_agent_tools_wiring.py:test_build_anthropic_tools_conversion, tests/test_tool_access_exclusion.py:test_build_anthropic_tools_excludes_disabled]
  """
  raw_tools: list[dict[str, Any]] = []
  for spec in mcp_client.get_tool_schemas():
@@ -654,7 +673,7 @@ _CACHED_ANTHROPIC_TOOLS: Optional[list[dict[str, Any]]] = None
 
 def _get_anthropic_tools() -> list[dict[str, Any]]:
  """
- [C: tests/test_bias_efficacy.py:test_bias_efficacy_prompt_generation, tests/test_bias_efficacy.py:test_bias_parameter_nudging, tests/test_bias_integration.py:test_tool_declaration_biasing_anthropic]
+  [C: tests/test_bias_efficacy.py:test_bias_efficacy_prompt_generation, tests/test_bias_efficacy.py:test_bias_parameter_nudging, tests/test_bias_integration.py:test_tool_declaration_biasing_anthropic]
  """
  global _CACHED_ANTHROPIC_TOOLS
  if _CACHED_ANTHROPIC_TOOLS is None:
@@ -663,7 +682,7 @@ def _get_anthropic_tools() -> list[dict[str, Any]]:
 
 def _gemini_tool_declaration() -> Optional[types.Tool]:
  """
- [C: tests/test_tool_access_exclusion.py:test_gemini_tool_declaration_excludes_disabled]
+  [C: tests/test_tool_access_exclusion.py:test_gemini_tool_declaration_excludes_disabled]
  """
  raw_tools: list[dict[str, Any]] = []
  for spec in mcp_client.get_tool_schemas():
@@ -733,8 +752,9 @@ async def _execute_tool_calls_concurrently(
 ) -> list[tuple[str, str, str, str]]: # tool_name, call_id, output, original_name
  """
  
-  Executes multiple tool calls concurrently using asyncio.gather.
-  Returns a list of (tool_name, call_id, output, original_name).
+  
+   Executes multiple tool calls concurrently using asyncio.gather.
+   Returns a list of (tool_name, call_id, output, original_name).
   [C: tests/test_async_tools.py:test_execute_tool_calls_concurrently_exception_handling, tests/test_async_tools.py:test_execute_tool_calls_concurrently_timing]
  """
  monitor = performance_monitor.get_monitor()
@@ -783,7 +803,7 @@ async def _execute_single_tool_call_async(
  patch_callback: Optional[Callable[[str, str], Optional[str]]] = None
 ) -> tuple[str, str, str, str]:
  """
- [C: tests/test_external_mcp_e2e.py:test_external_mcp_e2e_refresh_and_call, tests/test_external_mcp_hitl.py:test_external_mcp_hitl_approval, tests/test_external_mcp_hitl.py:test_external_mcp_hitl_rejection, tests/test_tool_presets_execution.py:test_tool_ask_approval, tests/test_tool_presets_execution.py:test_tool_auto_approval, tests/test_tool_presets_execution.py:test_tool_rejection]
+  [C: tests/test_external_mcp_e2e.py:test_external_mcp_e2e_refresh_and_call, tests/test_external_mcp_hitl.py:test_external_mcp_hitl_approval, tests/test_external_mcp_hitl.py:test_external_mcp_hitl_rejection, tests/test_tool_presets_execution.py:test_tool_ask_approval, tests/test_tool_presets_execution.py:test_tool_auto_approval, tests/test_tool_presets_execution.py:test_tool_rejection]
  """
  if tier:
   set_current_tier(tier)
@@ -921,7 +941,7 @@ def _build_file_diff_text(changed_items: list[dict[str, Any]]) -> str:
 
 def _build_deepseek_tools() -> list[dict[str, Any]]:
  """
- [C: tests/test_tool_access_exclusion.py:test_build_deepseek_tools_excludes_disabled]
+  [C: tests/test_tool_access_exclusion.py:test_build_deepseek_tools_excludes_disabled]
  """
  raw_tools: list[dict[str, Any]] = []
  for spec in mcp_client.get_tool_schemas():
@@ -1061,7 +1081,7 @@ def _strip_stale_file_refreshes(history: list[dict[str, Any]]) -> None:
 
 def _chunk_text(text: str, chunk_size: int) -> list[str]:
  """
- [C: src/rag_engine.py:RAGEngine._chunk_code, src/rag_engine.py:RAGEngine.index_file]
+  [C: src/rag_engine.py:RAGEngine._chunk_code, src/rag_engine.py:RAGEngine.index_file]
  """
  return [text[i:i + chunk_size] for i in range(0, len(text), chunk_size)]
 
@@ -1178,6 +1198,9 @@ def _repair_anthropic_history(history: list[dict[str, Any]]) -> None:
   })
 
 def _send_anthropic(md_content: str, user_message: str, base_dir: str, file_items: list[dict[str, Any]] | None = None, discussion_history: str = "", pre_tool_callback: Optional[Callable[[str, str, Optional[Callable[[str], str]]], Optional[str]]] = None, qa_callback: Optional[Callable[[str], str]] = None, stream_callback: Optional[Callable[[str], None]] = None, patch_callback: Optional[Callable[[str, str], Optional[str]]] = None) -> str:
+ """
+ [C: src/ai_server.py:_handle_send]
+ """
  monitor = performance_monitor.get_monitor()
  if monitor.enabled: monitor.start_component("ai_client._send_anthropic")
  try:
@@ -1358,7 +1381,7 @@ def _send_anthropic(md_content: str, user_message: str, base_dir: str, file_item
 
 def get_gemini_cache_stats() -> dict[str, Any]:
  """
- [C: src/app_controller.py:AppController._recalculate_session_usage, src/app_controller.py:AppController._update_cached_stats, tests/test_ai_cache_tracking.py:test_gemini_cache_tracking, tests/test_gemini_metrics.py:test_get_gemini_cache_stats_with_mock_client]
+  [C: src/app_controller.py:AppController._recalculate_session_usage, src/app_controller.py:AppController._update_cached_stats, tests/test_ai_cache_tracking.py:test_gemini_cache_tracking, tests/test_gemini_metrics.py:test_get_gemini_cache_stats_with_mock_client]
  """
  _ensure_gemini_client()
  if not _gemini_client:
@@ -1398,7 +1421,7 @@ def _list_gemini_models(api_key: str) -> list[str]:
 
 def _ensure_gemini_client() -> None:
  """
- [C: src/rag_engine.py:GeminiEmbeddingProvider.embed]
+  [C: src/rag_engine.py:GeminiEmbeddingProvider.embed]
  """
  global _gemini_client
  if _gemini_client is None:
@@ -1424,7 +1447,7 @@ def _send_gemini(md_content: str, user_message: str, base_dir: str,
  stream_callback: Optional[Callable[[str], None]] = None,
  patch_callback: Optional[Callable[[str, str], Optional[str]]] = None) -> str:
  """
- [C: tests/test_tier4_interceptor.py:test_gemini_provider_passes_qa_callback_to_run_script]
+  [C: src/ai_server.py:_handle_send, tests/test_tier4_interceptor.py:test_gemini_provider_passes_qa_callback_to_run_script]
  """
  global _gemini_chat, _gemini_cache, _gemini_cache_md_hash, _gemini_cache_created_at, _gemini_cached_file_paths
  monitor = performance_monitor.get_monitor()
@@ -1656,6 +1679,9 @@ def _send_gemini_cli(md_content: str, user_message: str, base_dir: str,
  qa_callback: Optional[Callable[[str], str]] = None,
  stream_callback: Optional[Callable[[str], None]] = None,
  patch_callback: Optional[Callable[[str, str], Optional[str]]] = None) -> str:
+ """
+ [C: src/ai_server.py:_handle_send]
+ """
  global _gemini_cli_adapter
  try:
   if _gemini_cli_adapter is None:
@@ -1802,6 +1828,9 @@ def _send_deepseek(md_content: str, user_message: str, base_dir: str,
  qa_callback: Optional[Callable[[str], str]] = None,
  stream_callback: Optional[Callable[[str], None]] = None,
  patch_callback: Optional[Callable[[str, str], Optional[str]]] = None) -> str:
+ """
+ [C: src/ai_server.py:_handle_send]
+ """
  monitor = performance_monitor.get_monitor()
  if monitor.enabled: monitor.start_component("ai_client._send_deepseek")
  try:
@@ -2081,6 +2110,9 @@ def _send_minimax(md_content: str, user_message: str, base_dir: str,
  qa_callback: Optional[Callable[[str], str]] = None,
  stream_callback: Optional[Callable[[str], None]] = None,
  patch_callback: Optional[Callable[[str, str], Optional[str]]] = None) -> str:
+ """
+ [C: src/ai_server.py:_handle_send]
+ """
  try:
   mcp_client.configure(file_items or [], [base_dir])
   creds = _load_credentials()
@@ -2297,7 +2329,6 @@ def _send_minimax(md_content: str, user_message: str, base_dir: str,
 
 def run_tier4_analysis(stderr: str) -> str:
  """
- [C: src/native_orchestrator.py:NativeOrchestrator.analyze_error]
  """
  if not stderr or not stderr.strip():
   return ""
@@ -2346,7 +2377,7 @@ def run_tier4_patch_callback(stderr: str, base_dir: str) -> Optional[str]:
 
 def run_tier4_patch_generation(error: str, file_context: str) -> str:
  """
- [C: src/gui_2.py:App.request_patch_from_tier4, src/native_orchestrator.py:NativeOrchestrator.run_tier4_patch, tests/test_tier4_patch_generation.py:test_run_tier4_patch_generation_calls_ai, tests/test_tier4_patch_generation.py:test_run_tier4_patch_generation_empty_error, tests/test_tier4_patch_generation.py:test_run_tier4_patch_generation_returns_diff]
+  [C: src/gui_2.py:App.request_patch_from_tier4, tests/test_tier4_patch_generation.py:test_run_tier4_patch_generation_calls_ai, tests/test_tier4_patch_generation.py:test_run_tier4_patch_generation_empty_error, tests/test_tier4_patch_generation.py:test_run_tier4_patch_generation_returns_diff]
  """
  if not error or not error.strip():
   return ""
@@ -2375,7 +2406,7 @@ def run_tier4_patch_generation(error: str, file_context: str) -> str:
 
 def get_token_stats(md_content: str) -> dict[str, Any]:
  """
- [C: src/app_controller.py:AppController._refresh_api_metrics]
+  [C: src/app_controller.py:AppController._refresh_api_metrics]
  """
  global _provider, _gemini_client, _model, _CHARS_PER_TOKEN
  total_tokens = 0
@@ -2424,7 +2455,7 @@ def send(
  rag_engine: Optional[Any] = None,
 ) -> str:
  """
- [C: simulation/user_agent.py:UserSimAgent.generate_response, src/api_hooks.py:WebSocketServer._handler, src/api_hooks.py:WebSocketServer.broadcast, src/app_controller.py:AppController._handle_request_event, src/app_controller.py:AppController.generate, src/conductor_tech_lead.py:generate_tickets, src/multi_agent_conductor.py:run_worker_lifecycle, src/native_orchestrator.py:NativeOrchestrator.execute_ticket, src/orchestrator_pm.py:generate_tracks, tests/test_ai_cache_tracking.py:test_gemini_cache_tracking, tests/test_ai_client_cli.py:test_ai_client_send_gemini_cli, tests/test_api_events.py:test_send_emits_events_proper, tests/test_api_events.py:test_send_emits_tool_events, tests/test_deepseek_provider.py:test_deepseek_completion_logic, tests/test_deepseek_provider.py:test_deepseek_payload_verification, tests/test_deepseek_provider.py:test_deepseek_reasoner_payload_verification, tests/test_deepseek_provider.py:test_deepseek_reasoning_logic, tests/test_deepseek_provider.py:test_deepseek_streaming, tests/test_deepseek_provider.py:test_deepseek_tool_calling, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_full_flow_integration, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_send_captures_usage_metadata, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_send_handles_tool_use_events, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_send_parses_jsonl_output, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_send_starts_subprocess_with_correct_args, tests/test_gemini_cli_adapter_parity.py:TestGeminiCliAdapterParity.test_send_parses_tool_calls_from_streaming_json, tests/test_gemini_cli_adapter_parity.py:TestGeminiCliAdapterParity.test_send_starts_subprocess_with_model, tests/test_gemini_cli_edge_cases.py:test_gemini_cli_context_bleed_prevention, tests/test_gemini_cli_edge_cases.py:test_gemini_cli_loop_termination, tests/test_gemini_cli_integration.py:test_gemini_cli_full_integration, tests/test_gemini_cli_integration.py:test_gemini_cli_rejection_and_history, tests/test_gemini_cli_parity_regression.py:test_get_history_bleed_stats, tests/test_gemini_cli_parity_regression.py:test_send_invokes_adapter_send, tests/test_gui2_mcp.py:test_mcp_tool_call_is_dispatched, tests/test_tier4_interceptor.py:test_ai_client_passes_qa_callback, tests/test_token_usage.py:test_token_usage_tracking, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
+  [C: simulation/user_agent.py:UserSimAgent.generate_response, src/api_hooks.py:WebSocketServer._handler, src/api_hooks.py:WebSocketServer.broadcast, src/app_controller.py:AppController._handle_request_event, src/app_controller.py:_api_generate, src/conductor_tech_lead.py:generate_tickets, src/multi_agent_conductor.py:run_worker_lifecycle, src/orchestrator_pm.py:generate_tracks, tests/test_ai_cache_tracking.py:test_gemini_cache_tracking, tests/test_ai_client_cli.py:test_ai_client_send_gemini_cli, tests/test_api_events.py:test_send_emits_events_proper, tests/test_api_events.py:test_send_emits_tool_events, tests/test_deepseek_provider.py:test_deepseek_completion_logic, tests/test_deepseek_provider.py:test_deepseek_payload_verification, tests/test_deepseek_provider.py:test_deepseek_reasoner_payload_verification, tests/test_deepseek_provider.py:test_deepseek_reasoning_logic, tests/test_deepseek_provider.py:test_deepseek_streaming, tests/test_deepseek_provider.py:test_deepseek_tool_calling, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_full_flow_integration, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_send_captures_usage_metadata, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_send_handles_tool_use_events, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_send_parses_jsonl_output, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_send_starts_subprocess_with_correct_args, tests/test_gemini_cli_adapter_parity.py:TestGeminiCliAdapterParity.test_send_parses_tool_calls_from_streaming_json, tests/test_gemini_cli_adapter_parity.py:TestGeminiCliAdapterParity.test_send_starts_subprocess_with_model, tests/test_gemini_cli_edge_cases.py:test_gemini_cli_context_bleed_prevention, tests/test_gemini_cli_edge_cases.py:test_gemini_cli_loop_termination, tests/test_gemini_cli_integration.py:test_gemini_cli_full_integration, tests/test_gemini_cli_integration.py:test_gemini_cli_rejection_and_history, tests/test_gemini_cli_parity_regression.py:test_send_invokes_adapter_send, tests/test_gui2_mcp.py:test_mcp_tool_call_is_dispatched, tests/test_tier4_interceptor.py:test_ai_client_passes_qa_callback, tests/test_token_usage.py:test_token_usage_tracking, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
  """
  monitor = performance_monitor.get_monitor()
  if monitor.enabled: monitor.start_component("ai_client.send")
@@ -2473,7 +2504,7 @@ def send(
 
 def _add_bleed_derived(d: dict[str, Any], sys_tok: int = 0, tool_tok: int = 0) -> dict[str, Any]:
  """
- [C: tests/test_token_viz.py:test_add_bleed_derived_aliases, tests/test_token_viz.py:test_add_bleed_derived_breakdown, tests/test_token_viz.py:test_add_bleed_derived_headroom, tests/test_token_viz.py:test_add_bleed_derived_headroom_clamped_to_zero, tests/test_token_viz.py:test_add_bleed_derived_history_clamped_to_zero, tests/test_token_viz.py:test_add_bleed_derived_would_trim_false, tests/test_token_viz.py:test_add_bleed_derived_would_trim_true, tests/test_token_viz.py:test_would_trim_boundary_exact, tests/test_token_viz.py:test_would_trim_just_above_threshold, tests/test_token_viz.py:test_would_trim_just_below_threshold]
+  [C: tests/test_token_viz.py:test_add_bleed_derived_aliases, tests/test_token_viz.py:test_add_bleed_derived_breakdown, tests/test_token_viz.py:test_add_bleed_derived_headroom, tests/test_token_viz.py:test_add_bleed_derived_headroom_clamped_to_zero, tests/test_token_viz.py:test_add_bleed_derived_history_clamped_to_zero, tests/test_token_viz.py:test_add_bleed_derived_would_trim_false, tests/test_token_viz.py:test_add_bleed_derived_would_trim_true, tests/test_token_viz.py:test_would_trim_boundary_exact, tests/test_token_viz.py:test_would_trim_just_above_threshold, tests/test_token_viz.py:test_would_trim_just_below_threshold]
  """
  cur = d.get("current", 0)
  lim = d.get("limit", 0)
@@ -2500,7 +2531,7 @@ if os.environ.get("SLOP_TOOL_PRESET"):
 
 def run_subagent_summarization(file_path: str, content: str, is_code: bool, outline: str) -> str:
  """
- Performs a stateless summarization request using a sub-agent prompt.  [C: src/summarize.py:summarise_file, tests/test_subagent_summarization.py:test_run_subagent_summarization_anthropic, tests/test_subagent_summarization.py:test_run_subagent_summarization_gemini]
+  [C: src/summarize.py:summarise_file, tests/test_subagent_summarization.py:test_run_subagent_summarization_anthropic, tests/test_subagent_summarization.py:test_run_subagent_summarization_gemini]
  """
  prompt_tmpl = mma_prompts.TIER4_SUMMARIZE_CODE_PROMPT if is_code else mma_prompts.TIER4_SUMMARIZE_TEXT_PROMPT
  prompt = prompt_tmpl.format(file_path=file_path, outline=outline, content=content)
@@ -2549,4 +2580,4 @@ def run_subagent_summarization(file_path: str, content: str, is_code: bool, outl
   return resp_data.get("text", "")
  return "ERROR: Unsupported provider for sub-agent summarization"
 
-#endregion: Subagent Summarization
+#endregion: Subagent Summarization
\ No newline at end of file
diff --git a/src/api_hook_client.py b/src/api_hook_client.py
index a3da066..b2478a9 100644
--- a/src/api_hook_client.py
+++ b/src/api_hook_client.py
@@ -39,14 +39,15 @@ from typing import Any
 class ApiHookClient:
  def __init__(self, base_url: str = "http://127.0.0.1:8999", api_key: str | None = None):
   """
-  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+    [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   self.base_url = base_url.rstrip('/')
   self.api_key = api_key
 
  def _make_request(self, method: str, path: str, data: dict | None = None, timeout: float = 5.0) -> dict[str, Any] | None:
   """
-  Helper to make HTTP requests to the hook server.
+  
+    Helper to make HTTP requests to the hook server.
     [C: tests/test_api_hook_client.py:test_unsupported_method_error]
   """
   url = f"{self.base_url}{path}"
@@ -71,8 +72,9 @@ class ApiHookClient:
 
  def wait_for_server(self, timeout: int = 15) -> bool:
   """
-  Polls the health endpoint until the server responds or timeout occurs.
-    [C: simulation/live_walkthrough.py:main, simulation/ping_pong.py:main, simulation/sim_base.py:BaseSimulation.setup, tests/smoke_status_hook.py:test_status_hook, tests/test_ai_settings_layout.py:test_change_provider_via_hook, tests/test_ai_settings_layout.py:test_set_params_via_custom_callback, tests/test_auto_switch_sim.py:test_auto_switch_sim, tests/test_conductor_api_hook_integration.py:test_conductor_integrates_api_hook_client_for_verification, tests/test_deepseek_infra.py:test_gui_provider_list_via_hooks, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_external_editor_gui.py:test_button_click_is_received, tests/test_external_editor_gui.py:test_patch_modal_shows_with_configured_editor, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui2_parity.py:test_gui2_click_hook_works, tests/test_gui2_parity.py:test_gui2_custom_callback_hook_works, tests/test_gui2_parity.py:test_gui2_set_value_hook_works, tests/test_gui_context_presets.py:test_gui_context_preset_save_load, tests/test_hooks.py:test_live_hook_server_responses, tests/test_live_workflow.py:test_full_live_workflow, tests/test_mma_concurrent_tracks_sim.py:test_mma_concurrent_tracks_execution, tests/test_mma_concurrent_tracks_stress_sim.py:test_mma_concurrent_tracks_stress, tests/test_mma_step_mode_sim.py:test_mma_step_mode_approval_flow, tests/test_patch_modal_gui.py:test_patch_apply_modal_workflow, tests/test_patch_modal_gui.py:test_patch_modal_appears_on_trigger, tests/test_preset_windows_layout.py:test_api_hook_under_load, tests/test_preset_windows_layout.py:test_preset_windows_opening, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim, tests/test_rag_visual_sim.py:test_rag_full_lifecycle_sim, tests/test_rag_visual_sim.py:test_rag_settings_persistence_sim, tests/test_selectable_ui.py:test_selectable_label_stability, tests/test_system_prompt_sim.py:test_system_prompt_sim, tests/test_tool_management_layout.py:test_tool_management_gettable_fields, tests/test_tool_management_layout.py:test_tool_management_state_updates, tests/test_ui_cache_controls_sim.py:test_ui_cache_controls, tests/test_undo_redo_sim.py:test_undo_redo_context_mutation, tests/test_undo_redo_sim.py:test_undo_redo_discussion_mutation, tests/test_undo_redo_sim.py:test_undo_redo_lifecycle, tests/test_visual_orchestration.py:test_mma_epic_lifecycle, tests/test_visual_sim_gui_ux.py:test_gui_track_creation, tests/test_visual_sim_gui_ux.py:test_gui_ux_event_routing, tests/test_visual_sim_mma_v2.py:test_mma_complete_lifecycle, tests/test_workspace_profiles_sim.py:test_workspace_profiles_restoration, tests/test_z_negative_flows.py:test_mock_error_result, tests/test_z_negative_flows.py:test_mock_malformed_json, tests/test_z_negative_flows.py:test_mock_timeout]
+  
+    Polls the health endpoint until the server responds or timeout occurs.
+    [C: simulation/live_walkthrough.py:main, simulation/ping_pong.py:main, simulation/sim_base.py:BaseSimulation.setup, tests/smoke_status_hook.py:test_status_hook, tests/test_ai_settings_layout.py:test_change_provider_via_hook, tests/test_ai_settings_layout.py:test_set_params_via_custom_callback, tests/test_auto_switch_sim.py:test_auto_switch_sim, tests/test_conductor_api_hook_integration.py:test_conductor_integrates_api_hook_client_for_verification, tests/test_deepseek_infra.py:test_gui_provider_list_via_hooks, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_external_editor_gui.py:test_button_click_is_received, tests/test_external_editor_gui.py:test_patch_modal_shows_with_configured_editor, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui2_parity.py:test_gui2_click_hook_works, tests/test_gui2_parity.py:test_gui2_custom_callback_hook_works, tests/test_gui2_parity.py:test_gui2_set_value_hook_works, tests/test_gui_context_presets.py:test_gui_context_preset_save_load, tests/test_hooks.py:test_live_hook_server_responses, tests/test_live_workflow.py:test_full_live_workflow, tests/test_mma_concurrent_tracks_sim.py:test_mma_concurrent_tracks_execution, tests/test_mma_concurrent_tracks_stress_sim.py:test_mma_concurrent_tracks_stress, tests/test_mma_step_mode_sim.py:test_mma_step_mode_approval_flow, tests/test_patch_modal_gui.py:test_patch_apply_modal_workflow, tests/test_patch_modal_gui.py:test_patch_modal_appears_on_trigger, tests/test_phase6_simulation.py:test_ast_inspector_modal_opens, tests/test_phase6_simulation.py:test_batch_operations_shift_click, tests/test_phase6_simulation.py:test_slice_editor_add_remove, tests/test_preset_windows_layout.py:test_api_hook_under_load, tests/test_preset_windows_layout.py:test_preset_windows_opening, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim, tests/test_rag_visual_sim.py:test_rag_full_lifecycle_sim, tests/test_rag_visual_sim.py:test_rag_settings_persistence_sim, tests/test_selectable_ui.py:test_selectable_label_stability, tests/test_system_prompt_sim.py:test_system_prompt_sim, tests/test_tool_management_layout.py:test_tool_management_gettable_fields, tests/test_tool_management_layout.py:test_tool_management_state_updates, tests/test_ui_cache_controls_sim.py:test_ui_cache_controls, tests/test_undo_redo_sim.py:test_undo_redo_context_mutation, tests/test_undo_redo_sim.py:test_undo_redo_discussion_mutation, tests/test_undo_redo_sim.py:test_undo_redo_lifecycle, tests/test_visual_mma.py:test_visual_mma_components, tests/test_visual_orchestration.py:test_mma_epic_lifecycle, tests/test_visual_sim_gui_ux.py:test_gui_track_creation, tests/test_visual_sim_gui_ux.py:test_gui_ux_event_routing, tests/test_visual_sim_mma_v2.py:test_mma_complete_lifecycle, tests/test_workspace_profiles_sim.py:test_workspace_profiles_restoration, tests/test_z_negative_flows.py:test_mock_error_result, tests/test_z_negative_flows.py:test_mock_malformed_json, tests/test_z_negative_flows.py:test_mock_timeout]
   """
   start = time.time()
   while time.time() - start < timeout:
@@ -84,8 +86,9 @@ class ApiHookClient:
 
  def get_status(self) -> dict[str, Any]:
   """
-  Checks the health of the hook server.
-    [C: tests/test_api_hook_client.py:test_get_status_success, tests/test_headless_simulation.py:test_mma_track_lifecycle_simulation, tests/test_hooks.py:test_live_hook_server_responses, tests/test_mma_concurrent_tracks_stress_sim.py:test_mma_concurrent_tracks_stress, tests/test_preset_windows_layout.py:make_request, tests/test_preset_windows_layout.py:test_preset_windows_opening, tests/test_ui_cache_controls_sim.py:test_ui_cache_controls]
+  
+    Checks the health of the hook server.
+    [C: tests/test_api_hook_client.py:test_get_status_success, tests/test_headless_simulation.py:test_mma_track_lifecycle_simulation, tests/test_hooks.py:test_live_hook_server_responses, tests/test_mma_concurrent_tracks_stress_sim.py:test_mma_concurrent_tracks_stress, tests/test_phase6_simulation.py:test_ast_inspector_modal_opens, tests/test_phase6_simulation.py:test_batch_operations_shift_click, tests/test_phase6_simulation.py:test_slice_editor_add_remove, tests/test_preset_windows_layout.py:make_request, tests/test_preset_windows_layout.py:test_preset_windows_opening, tests/test_ui_cache_controls_sim.py:test_ui_cache_controls]
   """
   res = self._make_request('GET', '/status')
   if res is None:
@@ -96,28 +99,32 @@ class ApiHookClient:
 
  def post_project(self, project_data: dict) -> dict[str, Any]:
   """
-  Updates the current project configuration.
+  
+    Updates the current project configuration.
     [C: simulation/sim_context.py:ContextSimulation.run]
   """
   return self._make_request('POST', '/api/project', data=project_data) or {}
 
  def get_project(self) -> dict[str, Any]:
   """
-  Retrieves the current project state.
+  
+    Retrieves the current project state.
     [C: simulation/sim_context.py:ContextSimulation.run, tests/test_api_hook_client.py:test_get_project_success, tests/test_gui_context_presets.py:test_gui_context_preset_save_load, tests/test_headless_simulation.py:test_mma_track_lifecycle_simulation, tests/test_hooks.py:test_live_hook_server_responses, tests/test_live_workflow.py:test_full_live_workflow]
   """
   return self._make_request('GET', '/api/project') or {}
 
  def get_session(self) -> dict[str, Any]:
   """
-  Retrieves the current discussion session history.
+  
+    Retrieves the current discussion session history.
     [C: simulation/ping_pong.py:main, simulation/sim_context.py:ContextSimulation.run, simulation/sim_execution.py:ExecutionSimulation.run, simulation/sim_tools.py:ToolsSimulation.run, simulation/workflow_sim.py:WorkflowSimulator.run_discussion_turn_async, simulation/workflow_sim.py:WorkflowSimulator.wait_for_ai_response, tests/test_api_hook_client.py:test_get_session_success, tests/test_gui_stress_performance.py:test_comms_volume_stress_performance, tests/test_live_workflow.py:test_full_live_workflow, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim]
   """
   return self._make_request('GET', '/api/session') or {}
 
  def post_session(self, session_entries: list[dict]) -> dict[str, Any]:
   """
-  Updates the session history.
+  
+    Updates the session history.
     [C: tests/test_gui_stress_performance.py:test_comms_volume_stress_performance, tests/test_live_workflow.py:test_full_live_workflow]
   """
   return self._make_request('POST', '/api/session', data={"session": {"entries": session_entries}}) or {}
@@ -129,7 +136,8 @@ class ApiHookClient:
 
  def clear_events(self) -> list[dict[str, Any]]:
   """
-  Retrieves and clears the event queue.
+  
+    Retrieves and clears the event queue.
     [C: simulation/sim_base.py:BaseSimulation.setup]
   """
   return self.get_events()
@@ -137,7 +145,7 @@ class ApiHookClient:
 
  def wait_for_event(self, event_type: str, timeout: int = 5) -> dict[str, Any] | None:
   """
-  [C: simulation/sim_base.py:BaseSimulation.wait_for_event, simulation/sim_execution.py:ExecutionSimulation.run, tests/test_z_negative_flows.py:test_mock_error_result, tests/test_z_negative_flows.py:test_mock_malformed_json, tests/test_z_negative_flows.py:test_mock_timeout]
+    [C: simulation/sim_base.py:BaseSimulation.wait_for_event, simulation/sim_execution.py:ExecutionSimulation.run, tests/test_z_negative_flows.py:test_mock_error_result, tests/test_z_negative_flows.py:test_mock_malformed_json, tests/test_z_negative_flows.py:test_mock_timeout]
   """
   start = time.time()
   while time.time() - start < timeout:
@@ -150,69 +158,81 @@ class ApiHookClient:
 
  def post_gui(self, payload: dict) -> dict[str, Any]:
   """
-  Pushes an event to the GUI's AsyncEventQueue via the /api/gui endpoint.
-    [C: tests/test_ai_settings_layout.py:test_set_params_via_custom_callback, tests/test_api_hook_client.py:test_post_gui_success, tests/test_gui2_parity.py:test_gui2_custom_callback_hook_works, tests/test_gui2_parity.py:test_gui2_set_value_hook_works, tests/test_visual_mma.py:test_visual_mma_components]
+  
+    Pushes an event to the GUI's AsyncEventQueue via the /api/gui endpoint.
+    [C: tests/test_ai_settings_layout.py:test_set_params_via_custom_callback, tests/test_api_hook_client.py:test_post_gui_success, tests/test_gui2_parity.py:test_gui2_custom_callback_hook_works, tests/test_gui2_parity.py:test_gui2_set_value_hook_works]
   """
   return self._make_request('POST', '/api/gui', data=payload) or {}
 
  def push_event(self, action: str, payload: dict) -> dict[str, Any]:
   """
-  Convenience to push a GUI task.
-    [C: tests/test_auto_switch_sim.py:test_auto_switch_sim, tests/test_auto_switch_sim.py:trigger_tier, tests/test_external_editor_gui.py:test_button_click_is_received, tests/test_external_editor_gui.py:test_patch_modal_shows_with_configured_editor, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui_context_presets.py:test_gui_context_preset_save_load, tests/test_gui_text_viewer.py:test_text_viewer_state_update, tests/test_patch_modal_gui.py:test_patch_apply_modal_workflow, tests/test_patch_modal_gui.py:test_patch_modal_appears_on_trigger, tests/test_preset_windows_layout.py:test_preset_windows_opening, tests/test_saved_presets_sim.py:test_preset_manager_modal, tests/test_saved_presets_sim.py:test_preset_switching, tests/test_tool_management_layout.py:test_tool_management_state_updates, tests/test_tool_presets_sim.py:test_tool_preset_switching, tests/test_visual_mma.py:test_visual_mma_components, tests/test_visual_sim_gui_ux.py:test_gui_ux_event_routing, tests/test_workspace_profiles_sim.py:test_workspace_profiles_restoration, tests/test_z_negative_flows.py:test_mock_error_result, tests/test_z_negative_flows.py:test_mock_malformed_json, tests/test_z_negative_flows.py:test_mock_timeout]
+  
+    Convenience to push a GUI task.
+    [C: tests/test_auto_switch_sim.py:test_auto_switch_sim, tests/test_auto_switch_sim.py:trigger_tier, tests/test_external_editor_gui.py:test_button_click_is_received, tests/test_external_editor_gui.py:test_patch_modal_shows_with_configured_editor, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui_context_presets.py:test_gui_context_preset_save_load, tests/test_gui_text_viewer.py:test_text_viewer_state_update, tests/test_patch_modal_gui.py:test_patch_apply_modal_workflow, tests/test_patch_modal_gui.py:test_patch_modal_appears_on_trigger, tests/test_preset_windows_layout.py:test_preset_windows_opening, tests/test_saved_presets_sim.py:test_preset_manager_modal, tests/test_saved_presets_sim.py:test_preset_switching, tests/test_tool_management_layout.py:test_tool_management_state_updates, tests/test_tool_presets_sim.py:test_tool_preset_switching, tests/test_visual_mma.py:test_visual_mma_components, tests/test_visual_sim_gui_ux.py:test_gui_track_creation, tests/test_visual_sim_gui_ux.py:test_gui_ux_event_routing, tests/test_workspace_profiles_sim.py:test_workspace_profiles_restoration, tests/test_z_negative_flows.py:test_mock_error_result, tests/test_z_negative_flows.py:test_mock_malformed_json, tests/test_z_negative_flows.py:test_mock_timeout]
   """
   return self.post_gui({"action": action, **payload})
 
  def click(self, item: str, user_data: Any = None) -> dict[str, Any]:
   """
-  Simulates a button click.
-    [C: simulation/live_walkthrough.py:main, simulation/ping_pong.py:main, simulation/sim_base.py:BaseSimulation.setup, simulation/sim_context.py:ContextSimulation.run, simulation/sim_execution.py:ExecutionSimulation.run, simulation/workflow_sim.py:WorkflowSimulator.create_discussion, simulation/workflow_sim.py:WorkflowSimulator.load_prior_log, simulation/workflow_sim.py:WorkflowSimulator.run_discussion_turn_async, simulation/workflow_sim.py:WorkflowSimulator.setup_new_project, simulation/workflow_sim.py:WorkflowSimulator.truncate_history, simulation/workflow_sim.py:WorkflowSimulator.wait_for_ai_response, tests/test_external_editor_gui.py:test_button_click_is_received, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui2_parity.py:test_gui2_click_hook_works, tests/test_live_workflow.py:test_full_live_workflow, tests/test_mma_concurrent_tracks_sim.py:test_mma_concurrent_tracks_execution, tests/test_mma_concurrent_tracks_stress_sim.py:test_mma_concurrent_tracks_stress, tests/test_mma_step_mode_sim.py:test_mma_step_mode_approval_flow, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim, tests/test_rag_visual_sim.py:test_rag_full_lifecycle_sim, tests/test_system_prompt_sim.py:test_system_prompt_sim, tests/test_ui_cache_controls_sim.py:test_ui_cache_controls, tests/test_undo_redo_sim.py:test_undo_redo_context_mutation, tests/test_undo_redo_sim.py:test_undo_redo_discussion_mutation, tests/test_undo_redo_sim.py:test_undo_redo_lifecycle, tests/test_visual_orchestration.py:test_mma_epic_lifecycle, tests/test_visual_sim_gui_ux.py:test_gui_track_creation, tests/test_visual_sim_mma_v2.py:_drain_approvals, tests/test_visual_sim_mma_v2.py:test_mma_complete_lifecycle, tests/test_z_negative_flows.py:test_mock_error_result, tests/test_z_negative_flows.py:test_mock_malformed_json, tests/test_z_negative_flows.py:test_mock_timeout]
+  
+    Simulates a button click.
+    [C: simulation/live_walkthrough.py:main, simulation/ping_pong.py:main, simulation/sim_base.py:BaseSimulation.setup, simulation/sim_context.py:ContextSimulation.run, simulation/sim_execution.py:ExecutionSimulation.run, simulation/workflow_sim.py:WorkflowSimulator.create_discussion, simulation/workflow_sim.py:WorkflowSimulator.load_prior_log, simulation/workflow_sim.py:WorkflowSimulator.run_discussion_turn_async, simulation/workflow_sim.py:WorkflowSimulator.setup_new_project, simulation/workflow_sim.py:WorkflowSimulator.truncate_history, simulation/workflow_sim.py:WorkflowSimulator.wait_for_ai_response, tests/test_external_editor_gui.py:test_button_click_is_received, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui2_parity.py:test_gui2_click_hook_works, tests/test_gui_text_viewer.py:test_text_viewer_state_update, tests/test_live_workflow.py:test_full_live_workflow, tests/test_mma_concurrent_tracks_sim.py:test_mma_concurrent_tracks_execution, tests/test_mma_concurrent_tracks_stress_sim.py:test_mma_concurrent_tracks_stress, tests/test_mma_step_mode_sim.py:test_mma_step_mode_approval_flow, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim, tests/test_rag_visual_sim.py:test_rag_full_lifecycle_sim, tests/test_saved_presets_sim.py:test_preset_manager_modal, tests/test_saved_presets_sim.py:test_preset_switching, tests/test_system_prompt_sim.py:test_system_prompt_sim, tests/test_ui_cache_controls_sim.py:test_ui_cache_controls, tests/test_undo_redo_sim.py:test_undo_redo_context_mutation, tests/test_undo_redo_sim.py:test_undo_redo_discussion_mutation, tests/test_undo_redo_sim.py:test_undo_redo_lifecycle, tests/test_visual_mma.py:test_visual_mma_components, tests/test_visual_orchestration.py:test_mma_epic_lifecycle, tests/test_visual_sim_gui_ux.py:test_gui_track_creation, tests/test_visual_sim_gui_ux.py:test_gui_ux_event_routing, tests/test_visual_sim_mma_v2.py:_drain_approvals, tests/test_visual_sim_mma_v2.py:test_mma_complete_lifecycle, tests/test_z_negative_flows.py:test_mock_error_result, tests/test_z_negative_flows.py:test_mock_malformed_json, tests/test_z_negative_flows.py:test_mock_timeout]
   """
   return self.post_gui({"action": "click", "item": item, "user_data": user_data})
 
  def set_value(self, item: str, value: Any) -> dict[str, Any]:
   """
-  Sets the value of a GUI widget.
-    [C: simulation/live_walkthrough.py:main, simulation/ping_pong.py:main, simulation/sim_ai_settings.py:AISettingsSimulation.run, simulation/sim_base.py:BaseSimulation.setup, simulation/workflow_sim.py:WorkflowSimulator.create_discussion, simulation/workflow_sim.py:WorkflowSimulator.run_discussion_turn_async, simulation/workflow_sim.py:WorkflowSimulator.setup_new_project, simulation/workflow_sim.py:WorkflowSimulator.truncate_history, tests/smoke_status_hook.py:test_status_hook, tests/test_ai_settings_layout.py:test_change_provider_via_hook, tests/test_auto_switch_sim.py:test_auto_switch_sim, tests/test_deepseek_infra.py:test_gui_provider_list_via_hooks, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_gui2_parity.py:test_gui2_click_hook_works, tests/test_gui2_performance.py:test_performance_benchmarking, tests/test_live_gui_integration_v2.py:test_api_gui_state_live, tests/test_live_workflow.py:test_full_live_workflow, tests/test_mma_concurrent_tracks_sim.py:test_mma_concurrent_tracks_execution, tests/test_mma_concurrent_tracks_stress_sim.py:test_mma_concurrent_tracks_stress, tests/test_mma_step_mode_sim.py:test_mma_step_mode_approval_flow, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim, tests/test_rag_visual_sim.py:test_rag_full_lifecycle_sim, tests/test_rag_visual_sim.py:test_rag_settings_persistence_sim, tests/test_saved_presets_sim.py:test_preset_manager_modal, tests/test_selectable_ui.py:test_selectable_label_stability, tests/test_system_prompt_sim.py:test_system_prompt_sim, tests/test_task_dag_popout_sim.py:test_task_dag_popout, tests/test_tool_presets_sim.py:test_tool_preset_switching, tests/test_undo_redo_sim.py:test_undo_redo_context_mutation, tests/test_undo_redo_sim.py:test_undo_redo_discussion_mutation, tests/test_undo_redo_sim.py:test_undo_redo_lifecycle, tests/test_usage_analytics_popout_sim.py:test_usage_analytics_popout, tests/test_visual_orchestration.py:test_mma_epic_lifecycle, tests/test_visual_sim_gui_ux.py:test_gui_track_creation, tests/test_visual_sim_mma_v2.py:test_mma_complete_lifecycle, tests/test_workspace_profiles_sim.py:test_workspace_profiles_restoration, tests/test_z_negative_flows.py:test_mock_error_result, tests/test_z_negative_flows.py:test_mock_malformed_json, tests/test_z_negative_flows.py:test_mock_timeout]
+  
+    Sets the value of a GUI widget.
+    [C: simulation/live_walkthrough.py:main, simulation/ping_pong.py:main, simulation/sim_ai_settings.py:AISettingsSimulation.run, simulation/sim_base.py:BaseSimulation.setup, simulation/workflow_sim.py:WorkflowSimulator.create_discussion, simulation/workflow_sim.py:WorkflowSimulator.run_discussion_turn_async, simulation/workflow_sim.py:WorkflowSimulator.setup_new_project, simulation/workflow_sim.py:WorkflowSimulator.truncate_history, tests/smoke_status_hook.py:test_status_hook, tests/test_ai_settings_layout.py:test_change_provider_via_hook, tests/test_auto_switch_sim.py:test_auto_switch_sim, tests/test_deepseek_infra.py:test_gui_provider_list_via_hooks, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_gui2_parity.py:test_gui2_click_hook_works, tests/test_gui2_performance.py:test_performance_benchmarking, tests/test_live_gui_integration_v2.py:test_api_gui_state_live, tests/test_live_workflow.py:test_full_live_workflow, tests/test_mma_concurrent_tracks_sim.py:test_mma_concurrent_tracks_execution, tests/test_mma_concurrent_tracks_stress_sim.py:test_mma_concurrent_tracks_stress, tests/test_mma_step_mode_sim.py:test_mma_step_mode_approval_flow, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim, tests/test_rag_visual_sim.py:test_rag_full_lifecycle_sim, tests/test_rag_visual_sim.py:test_rag_settings_persistence_sim, tests/test_saved_presets_sim.py:test_preset_manager_modal, tests/test_selectable_ui.py:test_selectable_label_stability, tests/test_system_prompt_sim.py:test_system_prompt_sim, tests/test_task_dag_popout_sim.py:test_task_dag_popout, tests/test_tool_presets_sim.py:test_tool_preset_switching, tests/test_undo_redo_sim.py:test_undo_redo_context_mutation, tests/test_undo_redo_sim.py:test_undo_redo_discussion_mutation, tests/test_undo_redo_sim.py:test_undo_redo_lifecycle, tests/test_usage_analytics_popout_sim.py:test_usage_analytics_popout, tests/test_visual_mma.py:test_visual_mma_components, tests/test_visual_orchestration.py:test_mma_epic_lifecycle, tests/test_visual_sim_mma_v2.py:test_mma_complete_lifecycle, tests/test_workspace_profiles_sim.py:test_workspace_profiles_restoration, tests/test_z_negative_flows.py:test_mock_error_result, tests/test_z_negative_flows.py:test_mock_malformed_json, tests/test_z_negative_flows.py:test_mock_timeout]
   """
   return self.post_gui({"action": "set_value", "item": item, "value": value})
 
  def select_tab(self, item: str, value: str) -> dict[str, Any]:
   """
-  Selects a specific tab in a tab bar.
+  
+    Selects a specific tab in a tab bar.
     [C: simulation/live_walkthrough.py:main, tests/test_api_hook_extensions.py:test_select_tab_integration]
   """
   return self.set_value(item, value)
 
  def select_list_item(self, item: str, value: str) -> dict[str, Any]:
   """
-  Selects an item in a listbox or combo.
+  
+    Selects an item in a listbox or combo.
     [C: simulation/workflow_sim.py:WorkflowSimulator.create_discussion, simulation/workflow_sim.py:WorkflowSimulator.switch_discussion, tests/test_api_hook_extensions.py:test_select_list_item_integration, tests/test_live_workflow.py:test_full_live_workflow]
   """
   return self.set_value(item, value)
 
  def drag(self, src_item: str, dst_item: str) -> dict[str, Any]:
   """
-  Simulates a drag and drop operation.
+  
+    Simulates a drag and drop operation.
+    [C: tests/test_api_hook_client.py:test_drag_success]
   """
   return self.push_event("drag", {"src_item": src_item, "dst_item": dst_item})
 
  def right_click(self, item: str) -> dict[str, Any]:
   """
-  Simulates a right-click on an item.
+  
+    Simulates a right-click on an item.
+    [C: tests/test_api_hook_client.py:test_right_click_success]
   """
   return self.push_event("right_click", {"item": item})
 
  def get_gui_state(self) -> dict[str, Any]:
   """
-  Returns the full GUI state available via the hook API.
-    [C: tests/test_ai_settings_layout.py:test_change_provider_via_hook, tests/test_ai_settings_layout.py:test_set_params_via_custom_callback, tests/test_conductor_api_hook_integration.py:simulate_conductor_phase_completion, tests/test_external_editor_gui.py:test_button_click_is_received, tests/test_external_editor_gui.py:test_patch_modal_shows_with_configured_editor, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui_text_viewer.py:test_text_viewer_state_update, tests/test_hooks.py:test_live_hook_server_responses, tests/test_live_gui_integration_v2.py:test_api_gui_state_live, tests/test_live_workflow.py:test_full_live_workflow, tests/test_live_workflow.py:wait_for_value, tests/test_patch_modal_gui.py:test_patch_apply_modal_workflow, tests/test_patch_modal_gui.py:test_patch_modal_appears_on_trigger, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim, tests/test_saved_presets_sim.py:test_preset_manager_modal, tests/test_saved_presets_sim.py:test_preset_switching, tests/test_task_dag_popout_sim.py:test_task_dag_popout, tests/test_tool_management_layout.py:test_tool_management_gettable_fields, tests/test_tool_management_layout.py:test_tool_management_state_updates, tests/test_tool_presets_sim.py:test_tool_preset_switching, tests/test_usage_analytics_popout_sim.py:test_usage_analytics_popout]
+  
+    Returns the full GUI state available via the hook API.
+    [C: tests/test_ai_settings_layout.py:test_change_provider_via_hook, tests/test_ai_settings_layout.py:test_set_params_via_custom_callback, tests/test_conductor_api_hook_integration.py:simulate_conductor_phase_completion, tests/test_external_editor_gui.py:test_button_click_is_received, tests/test_external_editor_gui.py:test_patch_modal_shows_with_configured_editor, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui_text_viewer.py:test_text_viewer_state_update, tests/test_hooks.py:test_live_hook_server_responses, tests/test_live_gui_integration_v2.py:test_api_gui_state_live, tests/test_live_workflow.py:test_full_live_workflow, tests/test_live_workflow.py:wait_for_value, tests/test_patch_modal_gui.py:test_patch_apply_modal_workflow, tests/test_patch_modal_gui.py:test_patch_modal_appears_on_trigger, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim, tests/test_saved_presets_sim.py:test_preset_manager_modal, tests/test_saved_presets_sim.py:test_preset_switching, tests/test_task_dag_popout_sim.py:test_task_dag_popout, tests/test_tool_management_layout.py:test_tool_management_gettable_fields, tests/test_tool_management_layout.py:test_tool_management_state_updates, tests/test_tool_presets_sim.py:test_tool_preset_switching, tests/test_usage_analytics_popout_sim.py:test_usage_analytics_popout, tests/test_visual_mma.py:test_visual_mma_components]
   """
   return self._make_request('GET', '/api/gui/state') or {}
 
  def get_value(self, item: str) -> Any:
   """
-  Gets the value of a GUI item via its mapped field.
-    [C: simulation/sim_ai_settings.py:AISettingsSimulation.run, simulation/sim_base.py:BaseSimulation.get_value, simulation/sim_base.py:BaseSimulation.setup, simulation/sim_base.py:BaseSimulation.wait_for_element, simulation/sim_context.py:ContextSimulation.run, simulation/sim_execution.py:ExecutionSimulation.run, simulation/workflow_sim.py:WorkflowSimulator.run_discussion_turn_async, simulation/workflow_sim.py:WorkflowSimulator.wait_for_ai_response, tests/smoke_status_hook.py:test_status_hook, tests/smoke_status_hook.py:wait_for_value, tests/test_auto_switch_sim.py:test_auto_switch_sim, tests/test_deepseek_infra.py:test_gui_provider_list_via_hooks, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_gui2_parity.py:test_gui2_click_hook_works, tests/test_gui2_parity.py:test_gui2_set_value_hook_works, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim, tests/test_rag_visual_sim.py:test_rag_full_lifecycle_sim, tests/test_rag_visual_sim.py:test_rag_settings_persistence_sim, tests/test_selectable_ui.py:test_selectable_label_stability, tests/test_system_prompt_sim.py:test_system_prompt_sim, tests/test_undo_redo_sim.py:test_undo_redo_context_mutation, tests/test_undo_redo_sim.py:test_undo_redo_discussion_mutation, tests/test_undo_redo_sim.py:test_undo_redo_lifecycle, tests/test_visual_mma.py:test_visual_mma_components, tests/test_workspace_profiles_sim.py:test_workspace_profiles_restoration]
+  
+    Gets the value of a GUI item via its mapped field.
+    [C: simulation/sim_ai_settings.py:AISettingsSimulation.run, simulation/sim_base.py:BaseSimulation.get_value, simulation/sim_base.py:BaseSimulation.setup, simulation/sim_base.py:BaseSimulation.wait_for_element, simulation/sim_context.py:ContextSimulation.run, simulation/sim_execution.py:ExecutionSimulation.run, simulation/workflow_sim.py:WorkflowSimulator.run_discussion_turn_async, simulation/workflow_sim.py:WorkflowSimulator.wait_for_ai_response, tests/smoke_status_hook.py:test_status_hook, tests/smoke_status_hook.py:wait_for_value, tests/test_auto_switch_sim.py:test_auto_switch_sim, tests/test_deepseek_infra.py:test_gui_provider_list_via_hooks, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_gui2_parity.py:test_gui2_click_hook_works, tests/test_gui2_parity.py:test_gui2_set_value_hook_works, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim, tests/test_rag_visual_sim.py:test_rag_full_lifecycle_sim, tests/test_rag_visual_sim.py:test_rag_settings_persistence_sim, tests/test_selectable_ui.py:test_selectable_label_stability, tests/test_system_prompt_sim.py:test_system_prompt_sim, tests/test_undo_redo_sim.py:test_undo_redo_context_mutation, tests/test_undo_redo_sim.py:test_undo_redo_discussion_mutation, tests/test_undo_redo_sim.py:test_undo_redo_lifecycle, tests/test_workspace_profiles_sim.py:test_workspace_profiles_restoration]
   """
   # Try state endpoint first (new preferred way)
   state = self.get_gui_state()
@@ -235,7 +255,8 @@ class ApiHookClient:
 
  def get_text_value(self, item_tag: str) -> str | None:
   """
-  Wraps get_value and returns its string representation, or None.
+  
+    Wraps get_value and returns its string representation, or None.
     [C: tests/test_api_hook_client.py:test_get_text_value]
   """
   val = self.get_value(item_tag)
@@ -243,7 +264,8 @@ class ApiHookClient:
 
  def get_indicator_state(self, item_tag: str) -> dict[str, bool]:
   """
-  Returns the visibility/active state of a status indicator.
+  
+    Returns the visibility/active state of a status indicator.
     [C: simulation/live_walkthrough.py:main, tests/test_api_hook_extensions.py:test_get_indicator_state_integration, tests/test_live_workflow.py:test_full_live_workflow]
   """
   val = self.get_value(item_tag)
@@ -251,35 +273,40 @@ class ApiHookClient:
 
  def get_gui_diagnostics(self) -> dict[str, Any]:
   """
-  Retrieves performance and diagnostic metrics.
-    [C: tests/test_api_hook_client.py:test_get_performance_success, tests/test_hooks.py:test_live_hook_server_responses, tests/test_selectable_ui.py:test_selectable_label_stability]
+  
+    Retrieves performance and diagnostic metrics.
+    [C: tests/test_api_hook_client.py:test_get_performance_success, tests/test_hooks.py:test_live_hook_server_responses, tests/test_selectable_ui.py:test_selectable_label_stability, tests/test_visual_sim_gui_ux.py:test_gui_ux_event_routing]
   """
   return self._make_request('GET', '/api/gui/diagnostics') or {}
 
  def get_performance(self) -> dict[str, Any]:
   """
-  Retrieves performance metrics from the dedicated endpoint.
-    [C: tests/test_gui2_performance.py:test_performance_benchmarking, tests/test_gui_performance_requirements.py:test_idle_performance_requirements, tests/test_gui_stress_performance.py:test_comms_volume_stress_performance, tests/test_selectable_ui.py:test_selectable_label_stability, tests/test_visual_sim_gui_ux.py:test_gui_ux_event_routing]
+  
+    Retrieves performance metrics from the dedicated endpoint.
+    [C: tests/test_gui2_performance.py:test_performance_benchmarking, tests/test_gui_performance_requirements.py:test_idle_performance_requirements, tests/test_gui_stress_performance.py:test_comms_volume_stress_performance, tests/test_selectable_ui.py:test_selectable_label_stability]
   """
   return self._make_request('GET', '/api/performance') or {}
 
  def get_mma_status(self) -> dict[str, Any]:
   """
-  Retrieves the dedicated MMA engine status.
-    [C: tests/test_headless_simulation.py:test_mma_track_lifecycle_simulation, tests/test_live_workflow.py:test_full_live_workflow, tests/test_mma_concurrent_tracks_sim.py:_poll_mma_status, tests/test_mma_concurrent_tracks_sim.py:test_mma_concurrent_tracks_execution, tests/test_mma_concurrent_tracks_stress_sim.py:test_mma_concurrent_tracks_stress, tests/test_mma_step_mode_sim.py:_poll_mma_status, tests/test_mma_step_mode_sim.py:test_mma_step_mode_approval_flow, tests/test_visual_orchestration.py:test_mma_epic_lifecycle, tests/test_visual_sim_gui_ux.py:test_gui_ux_event_routing, tests/test_visual_sim_mma_v2.py:_poll]
+  
+    Retrieves the dedicated MMA engine status.
+    [C: tests/test_headless_simulation.py:test_mma_track_lifecycle_simulation, tests/test_live_workflow.py:test_full_live_workflow, tests/test_mma_concurrent_tracks_sim.py:_poll_mma_status, tests/test_mma_concurrent_tracks_sim.py:test_mma_concurrent_tracks_execution, tests/test_mma_concurrent_tracks_stress_sim.py:test_mma_concurrent_tracks_stress, tests/test_mma_step_mode_sim.py:_poll_mma_status, tests/test_mma_step_mode_sim.py:test_mma_step_mode_approval_flow, tests/test_visual_mma.py:test_visual_mma_components, tests/test_visual_orchestration.py:test_mma_epic_lifecycle, tests/test_visual_sim_gui_ux.py:test_gui_ux_event_routing, tests/test_visual_sim_mma_v2.py:_poll]
   """
   return self._make_request('GET', '/api/gui/mma_status') or {}
 
  def get_mma_workers(self) -> dict[str, Any]:
   """
-  Retrieves status for all active MMA workers.
+  
+    Retrieves status for all active MMA workers.
     [C: tests/test_headless_simulation.py:test_mma_track_lifecycle_simulation, tests/test_mma_concurrent_tracks_sim.py:test_mma_concurrent_tracks_execution, tests/test_mma_concurrent_tracks_stress_sim.py:_poll_mma_workers]
   """
   return self._make_request('GET', '/api/mma/workers') or {}
 
  def get_context_state(self) -> dict[str, Any]:
   """
-  Retrieves the current file and screenshot context state.
+  
+    Retrieves the current file and screenshot context state.
     [C: tests/test_gui_context_presets.py:test_gui_context_preset_save_load]
   """
   return self._make_request('GET', '/api/context/state') or {}
@@ -294,7 +321,8 @@ class ApiHookClient:
 
  def get_node_status(self, node_id: str) -> dict[str, Any]:
   """
-  Retrieves status for a specific node in the MMA DAG.
+  
+    Retrieves status for a specific node in the MMA DAG.
     [C: tests/test_api_hook_client.py:test_get_node_status]
   """
   return self._make_request('GET', f'/api/mma/node/{node_id}') or {}
@@ -302,8 +330,9 @@ class ApiHookClient:
  def request_confirmation(self, tool_name: str, args: dict) -> bool | None:
   """
   
-    Pushes a manual confirmation request and waits for response.
-    Blocks for up to 60 seconds.
+    
+      Pushes a manual confirmation request and waits for response.
+      Blocks for up to 60 seconds.
     [C: tests/test_headless_simulation.py:test_mma_track_lifecycle_simulation, tests/test_sync_hooks.py:test_api_ask_client_error, tests/test_sync_hooks.py:test_api_ask_client_method, tests/test_sync_hooks.py:test_api_ask_client_rejection]
   """
   # Long timeout as this waits for human input (60 seconds)
@@ -314,8 +343,9 @@ class ApiHookClient:
 
  def reset_session(self) -> None:
   """
-  Resets the current session via button click.
-    [C: src/app_controller.py:AppController._handle_reset_session, src/app_controller.py:AppController.current_model, src/app_controller.py:AppController.current_provider, src/app_controller.py:AppController.init_state, src/gui_2.py:App._render_provider_panel, src/gui_2.py:App._show_menus, src/multi_agent_conductor.py:run_worker_lifecycle, tests/conftest.py:live_gui, tests/conftest.py:reset_ai_client, tests/test_ai_cache_tracking.py:test_gemini_cache_tracking, tests/test_ai_client_cli.py:test_ai_client_send_gemini_cli, tests/test_api_events.py:test_send_emits_events_proper, tests/test_api_events.py:test_send_emits_tool_events, tests/test_deepseek_provider.py:test_deepseek_payload_verification, tests/test_deepseek_provider.py:test_deepseek_reasoner_payload_verification, tests/test_gemini_cli_integration.py:test_gemini_cli_full_integration, tests/test_gemini_cli_integration.py:test_gemini_cli_rejection_and_history, tests/test_gemini_metrics.py:test_get_gemini_cache_stats_with_mock_client, tests/test_headless_simulation.py:test_mma_track_lifecycle_simulation, tests/test_minimax_provider.py:test_minimax_history_bleed_stats, tests/test_mma_agent_focus_phase1.py:test_append_comms_has_source_tier_key, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_none_when_unset, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_set_when_current_tier_set, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_tier2, tests/test_session_logger_reset.py:test_reset_session, tests/test_token_usage.py:test_token_usage_tracking]
+  
+    Resets the current session via button click.
+    [C: src/app_controller.py:AppController._handle_reset_session, src/app_controller.py:AppController.current_model, src/app_controller.py:AppController.current_provider, src/app_controller.py:AppController.init_state, src/gui_2.py:App._render_provider_panel, src/gui_2.py:App._show_menus, src/multi_agent_conductor.py:run_worker_lifecycle, tests/conftest.py:live_gui, tests/conftest.py:reset_ai_client, tests/test_ai_cache_tracking.py:test_gemini_cache_tracking, tests/test_ai_client_cli.py:test_ai_client_send_gemini_cli, tests/test_api_events.py:test_send_emits_events_proper, tests/test_api_events.py:test_send_emits_tool_events, tests/test_deepseek_provider.py:test_deepseek_payload_verification, tests/test_deepseek_provider.py:test_deepseek_reasoner_payload_verification, tests/test_gemini_cli_integration.py:test_gemini_cli_full_integration, tests/test_gemini_cli_integration.py:test_gemini_cli_rejection_and_history, tests/test_gemini_metrics.py:test_get_gemini_cache_stats_with_mock_client, tests/test_headless_simulation.py:test_mma_track_lifecycle_simulation, tests/test_mma_agent_focus_phase1.py:test_append_comms_has_source_tier_key, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_none_when_unset, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_set_when_current_tier_set, tests/test_mma_agent_focus_phase1.py:test_append_comms_source_tier_tier2, tests/test_session_logger_reset.py:test_reset_session, tests/test_token_usage.py:test_token_usage_tracking]
   """
   self.click("btn_reset")
 
@@ -328,14 +358,16 @@ class ApiHookClient:
 
  def apply_patch(self) -> dict[str, Any]:
   """
-  Applies the pending patch.
+  
+    Applies the pending patch.
     [C: tests/test_patch_modal.py:test_apply_callback]
   """
   return self._make_request('POST', '/api/patch/apply') or {}
 
  def reject_patch(self) -> dict[str, Any]:
   """
-  Rejects the pending patch.
+  
+    Rejects the pending patch.
     [C: tests/test_patch_modal.py:test_reject_callback, tests/test_patch_modal.py:test_reject_patch]
   """
   return self._make_request('POST', '/api/patch/reject') or {}
@@ -346,7 +378,8 @@ class ApiHookClient:
 
  def spawn_mma_worker(self, data: dict) -> dict:
   """
-  Spawns a new MMA worker with the provided configuration.
+  
+    Spawns a new MMA worker with the provided configuration.
     [C: tests/test_headless_simulation.py:test_mma_track_lifecycle_simulation]
   """
   return self._make_request('POST', '/api/mma/workers/spawn', data=data) or {}
@@ -357,7 +390,8 @@ class ApiHookClient:
 
  def pause_mma_pipeline(self) -> dict:
   """
-  Pauses the MMA execution pipeline.
+  
+    Pauses the MMA execution pipeline.
     [C: tests/test_mma_step_mode_sim.py:test_mma_step_mode_approval_flow]
   """
   return self._make_request('POST', '/api/mma/pipeline/pause') or {}
@@ -368,21 +402,24 @@ class ApiHookClient:
 
  def inject_context(self, data: dict) -> dict:
   """
-  Injects custom file context into the application.
+  
+    Injects custom file context into the application.
     [C: tests/test_headless_simulation.py:test_mma_track_lifecycle_simulation]
   """
   return self._make_request('POST', '/api/context/inject', data=data) or {}
 
  def mutate_mma_dag(self, data: dict) -> dict:
   """
-  Mutates the MMA DAG (Directed Acyclic Graph) structure.
+  
+    Mutates the MMA DAG (Directed Acyclic Graph) structure.
     [C: tests/test_headless_simulation.py:test_mma_track_lifecycle_simulation]
   """
   return self._make_request('POST', '/api/mma/dag/mutate', data=data) or {}
 
  def approve_mma_ticket(self, ticket_id: str) -> dict:
   """
-  Manually approves a specific ticket for execution in Step Mode.
+  
+    Manually approves a specific ticket for execution in Step Mode.
     [C: tests/test_mma_step_mode_sim.py:test_mma_step_mode_approval_flow]
   """
-  return self._make_request('POST', '/api/mma/ticket/approve', data={"ticket_id": ticket_id}) or {}
+  return self._make_request('POST', '/api/mma/ticket/approve', data={"ticket_id": ticket_id}) or {}
\ No newline at end of file
diff --git a/src/api_hooks.py b/src/api_hooks.py
index f53f23e..fc73045 100644
--- a/src/api_hooks.py
+++ b/src/api_hooks.py
@@ -70,7 +70,8 @@ class HookServerInstance(ThreadingHTTPServer):
  """Custom HTTPServer that carries a reference to the main App instance."""
  def __init__(self, server_address: tuple[str, int], RequestHandlerClass: type, app: Any) -> None:
   """
-  Initializes the server instance with an app reference.
+  
+    Initializes the server instance with an app reference.
     [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   super().__init__(server_address, RequestHandlerClass)
@@ -418,7 +419,7 @@ class HookHandler(BaseHTTPRequestHandler):
     result = {"status": "done"}
     def apply_patch():
      """
-     [C: tests/test_patch_modal.py:test_apply_callback]
+          [C: tests/test_patch_modal.py:test_apply_callback]
      """
      try:
       if hasattr(app, "_apply_pending_patch"):
@@ -447,7 +448,7 @@ class HookHandler(BaseHTTPRequestHandler):
     result = {"status": "done"}
     def reject_patch():
      """
-     [C: tests/test_patch_modal.py:test_reject_callback, tests/test_patch_modal.py:test_reject_patch]
+          [C: tests/test_patch_modal.py:test_reject_callback, tests/test_patch_modal.py:test_reject_patch]
      """
      try:
       app._show_patch_modal = False
@@ -566,7 +567,7 @@ class HookHandler(BaseHTTPRequestHandler):
    elif self.path == "/api/mma/workers/kill":
     def kill_worker():
      """
-     [C: src/app_controller.py:AppController.kill_worker, src/gui_2.py:App._cb_kill_ticket, tests/test_conductor_engine_abort.py:test_kill_worker_sets_abort_and_joins_thread]
+          [C: src/app_controller.py:AppController.kill_worker, src/gui_2.py:App._cb_kill_ticket, tests/test_conductor_engine_abort.py:test_kill_worker_sets_abort_and_joins_thread]
      """
      try:
       worker_id = data.get("worker_id")
@@ -608,7 +609,7 @@ class HookHandler(BaseHTTPRequestHandler):
    elif self.path == "/api/context/inject":
     def inject_context():
      """
-     [C: tests/test_headless_simulation.py:test_mma_track_lifecycle_simulation]
+          [C: tests/test_headless_simulation.py:test_mma_track_lifecycle_simulation]
      """
      files = _get_app_attr(app, "files")
      if isinstance(files, list):
@@ -672,7 +673,7 @@ class HookHandler(BaseHTTPRequestHandler):
 class HookServer:
  def __init__(self, app: Any, port: int = 8999) -> None:
   """
-  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+    [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   self.app = app
   self.port = port
@@ -682,7 +683,7 @@ class HookServer:
 
  def start(self) -> None:
   """
-  [C: src/app_controller.py:AppController._cb_accept_tracks, src/app_controller.py:AppController._cb_plan_epic, src/app_controller.py:AppController._cb_start_track, src/app_controller.py:AppController._fetch_models, src/app_controller.py:AppController._handle_approve_ask, src/app_controller.py:AppController._handle_generate_send, src/app_controller.py:AppController._handle_md_only, src/app_controller.py:AppController._handle_reject_ask, src/app_controller.py:AppController._init_ai_and_hooks, src/app_controller.py:AppController._process_event_queue, src/app_controller.py:AppController._prune_old_logs, src/app_controller.py:AppController._rebuild_rag_index, src/app_controller.py:AppController._run_event_loop, src/app_controller.py:AppController._start_track_logic, src/app_controller.py:AppController.cb_prune_logs, src/app_controller.py:AppController.start_services, src/gui_2.py:App._render_discussion_panel, src/mcp_client.py:ExternalMCPManager.add_server, src/multi_agent_conductor.py:WorkerPool.spawn, src/performance_monitor.py:PerformanceMonitor.__init__, tests/test_ai_client_concurrency.py:test_ai_client_tier_isolation, tests/test_conductor_engine_abort.py:test_kill_worker_sets_abort_and_joins_thread, tests/test_conductor_engine_v2.py:side_effect, tests/test_spawn_interception_v2.py:test_confirm_spawn_pushed_to_queue, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
+    [C: src/app_controller.py:AppController._cb_accept_tracks, src/app_controller.py:AppController._cb_plan_epic, src/app_controller.py:AppController._cb_start_track, src/app_controller.py:AppController._fetch_models, src/app_controller.py:AppController._handle_approve_ask, src/app_controller.py:AppController._handle_generate_send, src/app_controller.py:AppController._handle_md_only, src/app_controller.py:AppController._handle_reject_ask, src/app_controller.py:AppController._init_ai_and_hooks, src/app_controller.py:AppController._process_event_queue, src/app_controller.py:AppController._prune_old_logs, src/app_controller.py:AppController._rebuild_rag_index, src/app_controller.py:AppController._run_event_loop, src/app_controller.py:AppController._start_track_logic, src/app_controller.py:AppController.cb_prune_logs, src/app_controller.py:AppController.init_state, src/app_controller.py:AppController.start_services, src/gui_2.py:App._render_discussion_entry_read_mode, src/gui_2.py:App._update_context_file_stats, src/mcp_client.py:ExternalMCPManager.add_server, src/multi_agent_conductor.py:WorkerPool.spawn, src/performance_monitor.py:PerformanceMonitor.__init__, tests/test_ai_client_concurrency.py:test_ai_client_tier_isolation, tests/test_conductor_engine_abort.py:test_kill_worker_sets_abort_and_joins_thread, tests/test_conductor_engine_v2.py:side_effect, tests/test_spawn_interception_v2.py:test_confirm_spawn_pushed_to_queue, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
   """
   if self.thread and self.thread.is_alive():
    return
@@ -710,7 +711,7 @@ class HookServer:
 
  def stop(self) -> None:
   """
-  [C: src/app_controller.py:AppController.shutdown, src/mcp_client.py:ExternalMCPManager.stop_all, tests/test_performance_monitor.py:test_perf_monitor_basic_timing, tests/test_performance_monitor.py:test_perf_monitor_component_timing, tests/test_performance_monitor.py:test_perf_monitor_extended_metrics, tests/test_performance_monitor.py:test_perf_monitor_scope_context_manager, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
+    [C: src/app_controller.py:AppController.shutdown, src/mcp_client.py:ExternalMCPManager.stop_all, tests/test_performance_monitor.py:test_perf_monitor_basic_timing, tests/test_performance_monitor.py:test_perf_monitor_component_timing, tests/test_performance_monitor.py:test_perf_monitor_extended_metrics, tests/test_performance_monitor.py:test_perf_monitor_scope_context_manager, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
   """
   if self.websocket_server:
    self.websocket_server.stop()
@@ -725,7 +726,7 @@ class WebSocketServer:
  """WebSocket gateway for real-time event streaming."""
  def __init__(self, app: Any, port: int = 9000) -> None:
   """
-  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+    [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   self.app = app
   self.port = port
@@ -760,7 +761,7 @@ class WebSocketServer:
   self._stop_event = asyncio.Event()
   async def main():
    """
-   [C: simulation/live_walkthrough.py:module, simulation/ping_pong.py:module, src/gui_2.py:module, tests/mock_concurrent_mma.py:module, tests/mock_gemini_cli.py:module, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_allow_decision, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_deny_decision, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_unreachable_hook_server, tests/test_cli_tool_bridge.py:module, tests/test_cli_tool_bridge_mapping.py:TestCliToolBridgeMapping.test_mapping_from_api_format, tests/test_cli_tool_bridge_mapping.py:module, tests/test_discussion_takes.py:module, tests/test_external_editor_gui.py:module, tests/test_headless_service.py:TestHeadlessStartup.test_headless_flag_triggers_run, tests/test_headless_service.py:TestHeadlessStartup.test_normal_startup_calls_app_run, tests/test_mma_skeleton.py:module, tests/test_orchestrator_pm.py:module, tests/test_orchestrator_pm_history.py:module, tests/test_post_process.py:module, tests/test_presets.py:module, tests/test_project_serialization.py:module, tests/test_run_worker_lifecycle_abort.py:module, tests/test_symbol_lookup.py:module, tests/test_system_prompt_exposure.py:module, tests/test_theme_nerv_fx.py:module]
+      [C: simulation/live_walkthrough.py:module, simulation/ping_pong.py:module, src/gui_2.py:module, tests/mock_concurrent_mma.py:module, tests/mock_gemini_cli.py:module, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_allow_decision, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_deny_decision, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_unreachable_hook_server, tests/test_cli_tool_bridge.py:module, tests/test_cli_tool_bridge_mapping.py:TestCliToolBridgeMapping.test_mapping_from_api_format, tests/test_cli_tool_bridge_mapping.py:module, tests/test_discussion_takes.py:module, tests/test_external_editor_gui.py:module, tests/test_headless_service.py:TestHeadlessStartup.test_headless_flag_triggers_run, tests/test_headless_service.py:TestHeadlessStartup.test_normal_startup_calls_app_run, tests/test_mma_skeleton.py:module, tests/test_orchestrator_pm.py:module, tests/test_orchestrator_pm_history.py:module, tests/test_presets.py:module, tests/test_project_serialization.py:module, tests/test_run_worker_lifecycle_abort.py:module, tests/test_symbol_lookup.py:module, tests/test_system_prompt_exposure.py:module, tests/test_theme_nerv_fx.py:module]
    """
    async with serve(self._handler, "127.0.0.1", self.port) as server:
     self.server = server
@@ -769,7 +770,7 @@ class WebSocketServer:
 
  def start(self) -> None:
   """
-  [C: src/app_controller.py:AppController._cb_accept_tracks, src/app_controller.py:AppController._cb_plan_epic, src/app_controller.py:AppController._cb_start_track, src/app_controller.py:AppController._fetch_models, src/app_controller.py:AppController._handle_approve_ask, src/app_controller.py:AppController._handle_generate_send, src/app_controller.py:AppController._handle_md_only, src/app_controller.py:AppController._handle_reject_ask, src/app_controller.py:AppController._init_ai_and_hooks, src/app_controller.py:AppController._process_event_queue, src/app_controller.py:AppController._prune_old_logs, src/app_controller.py:AppController._rebuild_rag_index, src/app_controller.py:AppController._run_event_loop, src/app_controller.py:AppController._start_track_logic, src/app_controller.py:AppController.cb_prune_logs, src/app_controller.py:AppController.start_services, src/gui_2.py:App._render_discussion_panel, src/mcp_client.py:ExternalMCPManager.add_server, src/multi_agent_conductor.py:WorkerPool.spawn, src/performance_monitor.py:PerformanceMonitor.__init__, tests/test_ai_client_concurrency.py:test_ai_client_tier_isolation, tests/test_conductor_engine_abort.py:test_kill_worker_sets_abort_and_joins_thread, tests/test_conductor_engine_v2.py:side_effect, tests/test_spawn_interception_v2.py:test_confirm_spawn_pushed_to_queue, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
+    [C: src/app_controller.py:AppController._cb_accept_tracks, src/app_controller.py:AppController._cb_plan_epic, src/app_controller.py:AppController._cb_start_track, src/app_controller.py:AppController._fetch_models, src/app_controller.py:AppController._handle_approve_ask, src/app_controller.py:AppController._handle_generate_send, src/app_controller.py:AppController._handle_md_only, src/app_controller.py:AppController._handle_reject_ask, src/app_controller.py:AppController._init_ai_and_hooks, src/app_controller.py:AppController._process_event_queue, src/app_controller.py:AppController._prune_old_logs, src/app_controller.py:AppController._rebuild_rag_index, src/app_controller.py:AppController._run_event_loop, src/app_controller.py:AppController._start_track_logic, src/app_controller.py:AppController.cb_prune_logs, src/app_controller.py:AppController.init_state, src/app_controller.py:AppController.start_services, src/gui_2.py:App._render_discussion_entry_read_mode, src/gui_2.py:App._update_context_file_stats, src/mcp_client.py:ExternalMCPManager.add_server, src/multi_agent_conductor.py:WorkerPool.spawn, src/performance_monitor.py:PerformanceMonitor.__init__, tests/test_ai_client_concurrency.py:test_ai_client_tier_isolation, tests/test_conductor_engine_abort.py:test_kill_worker_sets_abort_and_joins_thread, tests/test_conductor_engine_v2.py:side_effect, tests/test_spawn_interception_v2.py:test_confirm_spawn_pushed_to_queue, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
   """
   if self.thread and self.thread.is_alive():
    return
@@ -778,7 +779,7 @@ class WebSocketServer:
 
  def stop(self) -> None:
   """
-  [C: src/app_controller.py:AppController.shutdown, src/mcp_client.py:ExternalMCPManager.stop_all, tests/test_performance_monitor.py:test_perf_monitor_basic_timing, tests/test_performance_monitor.py:test_perf_monitor_component_timing, tests/test_performance_monitor.py:test_perf_monitor_extended_metrics, tests/test_performance_monitor.py:test_perf_monitor_scope_context_manager, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
+    [C: src/app_controller.py:AppController.shutdown, src/mcp_client.py:ExternalMCPManager.stop_all, tests/test_performance_monitor.py:test_perf_monitor_basic_timing, tests/test_performance_monitor.py:test_perf_monitor_component_timing, tests/test_performance_monitor.py:test_perf_monitor_extended_metrics, tests/test_performance_monitor.py:test_perf_monitor_scope_context_manager, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
   """
   if self.loop and self._stop_event:
    self.loop.call_soon_threadsafe(self._stop_event.set)
@@ -787,10 +788,10 @@ class WebSocketServer:
 
  def broadcast(self, channel: str, payload: dict[str, Any]) -> None:
   """
-  [C: src/app_controller.py:AppController._process_pending_gui_tasks, src/events.py:AsyncEventQueue.put, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
+    [C: src/app_controller.py:AppController._process_pending_gui_tasks, src/events.py:AsyncEventQueue.put, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
   """
   if not self.loop or channel not in self.clients:
    return
   message = json.dumps({"channel": channel, "payload": payload})
   for ws in list(self.clients[channel]):
-   asyncio.run_coroutine_threadsafe(ws.send(message), self.loop)
+   asyncio.run_coroutine_threadsafe(ws.send(message), self.loop)
\ No newline at end of file
diff --git a/src/app_controller.py b/src/app_controller.py
index c4c4f58..d798a17 100644
--- a/src/app_controller.py
+++ b/src/app_controller.py
@@ -39,15 +39,16 @@ from src.file_cache import ASTParser
 
 def parse_symbols(text: str) -> list[str]:
  """
- Finds all occurrences of '@SymbolName' in text and returns SymbolName.
- SymbolName can be a function, class, or method (e.g. @MyClass, @my_func, @MyClass.my_method).
- [C: tests/test_symbol_lookup.py:TestSymbolLookup.test_parse_symbols_basic, tests/test_symbol_lookup.py:TestSymbolLookup.test_parse_symbols_edge_cases, tests/test_symbol_lookup.py:TestSymbolLookup.test_parse_symbols_methods, tests/test_symbol_lookup.py:TestSymbolLookup.test_parse_symbols_mixed, tests/test_symbol_lookup.py:TestSymbolLookup.test_parse_symbols_no_symbols]
+ 
+  Finds all occurrences of '@SymbolName' in text and returns SymbolName.
+  SymbolName can be a function, class, or method (e.g. @MyClass, @my_func, @MyClass.my_method).
+  [C: tests/test_symbol_lookup.py:TestSymbolLookup.test_parse_symbols_basic, tests/test_symbol_lookup.py:TestSymbolLookup.test_parse_symbols_edge_cases, tests/test_symbol_lookup.py:TestSymbolLookup.test_parse_symbols_methods, tests/test_symbol_lookup.py:TestSymbolLookup.test_parse_symbols_mixed, tests/test_symbol_lookup.py:TestSymbolLookup.test_parse_symbols_no_symbols]
  """
  return re.findall(r"@([a-zA-Z_][a-zA-Z0-9_]*(?:\.[a-zA-Z_][a-zA-Z0-9_]*)*)", text)
 
 def get_symbol_definition(symbol: str, files: list[str]) -> tuple[str, str, int] | None:
  """
- [C: tests/test_symbol_lookup.py:TestSymbolLookup.test_get_symbol_definition_found, tests/test_symbol_lookup.py:TestSymbolLookup.test_get_symbol_definition_not_found]
+  [C: tests/test_symbol_lookup.py:TestSymbolLookup.test_get_symbol_definition_found, tests/test_symbol_lookup.py:TestSymbolLookup.test_get_symbol_definition_not_found]
  """
  for file_path in files:
   result = mcp_client.py_get_symbol_info(file_path, symbol)
@@ -59,7 +60,7 @@ def get_symbol_definition(symbol: str, files: list[str]) -> tuple[str, str, int]
 class ConfirmDialog:
  def __init__(self, script: str, base_dir: str) -> None:
   """
-  [C: src/app_controller.py:ConfirmDialog.__init__]
+    [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   self._uid = str(uuid.uuid4())
   self._script = str(script) if script is not None else ""
@@ -70,7 +71,7 @@ class ConfirmDialog:
 
  def wait(self) -> tuple[bool, str]:
   """
-  [C: src/app_controller.py:ConfirmDialog.wait]
+    [C: src/mcp_client.py:StdioMCPServer.stop, src/multi_agent_conductor.py:confirm_execution, src/multi_agent_conductor.py:confirm_spawn, tests/conftest.py:live_gui, tests/test_ai_client_concurrency.py:run_t1, tests/test_ai_client_concurrency.py:run_t2, tests/test_ai_server.py:test_server_handles_list_models, tests/test_ai_server.py:test_server_handles_unknown_method, tests/test_ai_server.py:test_server_loads_google_genai_quickly, tests/test_ai_server.py:test_server_outputs_ready_marker, tests/test_ai_server.py:test_server_starts_and_exits_cleanly, tests/test_conductor_engine_abort.py:worker, tests/test_parallel_execution.py:test_worker_pool_limit]
   """
   start_time = time.time()
   with self._condition:
@@ -83,7 +84,7 @@ class ConfirmDialog:
 class MMAApprovalDialog:
  def __init__(self, ticket_id: str, payload: str) -> None:
   """
-  [C: src/app_controller.py:MMAApprovalDialog.__init__]
+    [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   self._payload = payload
   self._condition = threading.Condition()
@@ -92,7 +93,7 @@ class MMAApprovalDialog:
 
  def wait(self) -> tuple[bool, str]:
   """
-  [C: src/app_controller.py:MMAApprovalDialog.wait]
+    [C: src/mcp_client.py:StdioMCPServer.stop, src/multi_agent_conductor.py:confirm_execution, src/multi_agent_conductor.py:confirm_spawn, tests/conftest.py:live_gui, tests/test_ai_client_concurrency.py:run_t1, tests/test_ai_client_concurrency.py:run_t2, tests/test_ai_server.py:test_server_handles_list_models, tests/test_ai_server.py:test_server_handles_unknown_method, tests/test_ai_server.py:test_server_loads_google_genai_quickly, tests/test_ai_server.py:test_server_outputs_ready_marker, tests/test_ai_server.py:test_server_starts_and_exits_cleanly, tests/test_conductor_engine_abort.py:worker, tests/test_parallel_execution.py:test_worker_pool_limit]
   """
   start_time = time.time()
   with self._condition:
@@ -105,7 +106,7 @@ class MMAApprovalDialog:
 class MMASpawnApprovalDialog:
  def __init__(self, ticket_id: str, role: str, prompt: str, context_md: str) -> None:
   """
-  [C: src/app_controller.py:MMASpawnApprovalDialog.__init__]
+    [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   self._prompt = prompt
   self._context_md = context_md
@@ -116,7 +117,7 @@ class MMASpawnApprovalDialog:
 
  def wait(self) -> dict[str, Any]:
   """
-  [C: src/app_controller.py:MMASpawnApprovalDialog.wait]
+    [C: src/mcp_client.py:StdioMCPServer.stop, src/multi_agent_conductor.py:confirm_execution, src/multi_agent_conductor.py:confirm_spawn, tests/conftest.py:live_gui, tests/test_ai_client_concurrency.py:run_t1, tests/test_ai_client_concurrency.py:run_t2, tests/test_ai_server.py:test_server_handles_list_models, tests/test_ai_server.py:test_server_handles_unknown_method, tests/test_ai_server.py:test_server_loads_google_genai_quickly, tests/test_ai_server.py:test_server_outputs_ready_marker, tests/test_ai_server.py:test_server_starts_and_exits_cleanly, tests/test_conductor_engine_abort.py:worker, tests/test_parallel_execution.py:test_worker_pool_limit]
   """
   start_time = time.time()
   with self._condition:
@@ -134,8 +135,9 @@ class MMASpawnApprovalDialog:
 #region: API Handlers
 async def _api_get_key(controller: 'AppController', header_key: str) -> str:
  """
- Validates the API key from the request header against configuration.
- [SDM: src/app_controller.py:_api_get_key]
+ 
+  Validates the API key from the request header against configuration.
+  [SDM: src/app_controller.py:_api_get_key]
  """
  headless_cfg = controller.config.get("headless", {})
  config_key = headless_cfg.get("api_key", "").strip()
@@ -149,15 +151,17 @@ async def _api_get_key(controller: 'AppController', header_key: str) -> str:
 
 def _api_health(controller: 'AppController') -> dict[str, str]:
  """
- Returns the health status of the API.
- [SDM: src/app_controller.py:_api_health]
+ 
+  Returns the health status of the API.
+  [SDM: src/app_controller.py:_api_health]
  """
  return {"status": "ok"}
 
 def _api_get_gui_state(controller: 'AppController') -> dict[str, Any]:
  """
- Returns the current GUI state for specific fields.
- [SDM: src/app_controller.py:_api_get_gui_state]
+ 
+  Returns the current GUI state for specific fields.
+  [SDM: src/app_controller.py:_api_get_gui_state]
  """
  gettable = getattr(controller, "_gettable_fields", {})
  state = {}
@@ -172,8 +176,9 @@ def _api_get_gui_state(controller: 'AppController') -> dict[str, Any]:
 
 def _api_get_mma_status(controller: 'AppController') -> dict[str, Any]:
  """
- Dedicated endpoint for MMA-related status.
- [SDM: src/app_controller.py:_api_get_mma_status]
+ 
+  Dedicated endpoint for MMA-related status.
+  [SDM: src/app_controller.py:_api_get_mma_status]
  """
  return {
   "mma_status": controller.mma_status,
@@ -190,24 +195,27 @@ def _api_get_mma_status(controller: 'AppController') -> dict[str, Any]:
 
 def _api_post_gui(controller: 'AppController', req: dict) -> dict[str, str]:    
  """
- Pushes a GUI task to the event queue.
- [SDM: src/app_controller.py:_api_post_gui]
+ 
+  Pushes a GUI task to the event queue.
+  [SDM: src/app_controller.py:_api_post_gui]
  """
  controller.event_queue.put("gui_task", req)
  return {"status": "queued"}
 
 def _api_get_api_session(controller: 'AppController') -> dict[str, Any]:        
  """
- Returns current discussion session entries.
- [SDM: src/app_controller.py:_api_get_api_session]
+ 
+  Returns current discussion session entries.
+  [SDM: src/app_controller.py:_api_get_api_session]
  """
  with controller._disc_entries_lock:
   return {"session": {"entries": controller.disc_entries}}
 
 def _api_post_api_session(controller: 'AppController', req: dict) -> dict[str, str]:
  """
- Updates session entries.
- [SDM: src/app_controller.py:_api_post_api_session]
+ 
+  Updates session entries.
+  [SDM: src/app_controller.py:_api_post_api_session]
  """
  entries = req.get("entries", [])
  with controller._disc_entries_lock:
@@ -216,29 +224,33 @@ def _api_post_api_session(controller: 'AppController', req: dict) -> dict[str, s
 
 def _api_get_api_project(controller: 'AppController') -> dict[str, Any]:        
  """
- Returns current project data.
- [SDM: src/app_controller.py:_api_get_api_project]
+ 
+  Returns current project data.
+  [SDM: src/app_controller.py:_api_get_api_project]
  """
  return {"project": controller.project}
 
 def _api_get_performance(controller: 'AppController') -> dict[str, Any]:        
  """
- Returns performance monitor metrics.
- [SDM: src/app_controller.py:_api_get_performance]
+ 
+  Returns performance monitor metrics.
+  [SDM: src/app_controller.py:_api_get_performance]
  """
  return {"performance": controller.perf_monitor.get_metrics()}
 
 def _api_get_diagnostics(controller: 'AppController') -> dict[str, Any]:        
  """
- Alias for performance metrics.
- [SDM: src/app_controller.py:_api_get_diagnostics]
+ 
+  Alias for performance metrics.
+  [SDM: src/app_controller.py:_api_get_diagnostics]
  """
  return controller.perf_monitor.get_metrics()
 
 def _api_status(controller: 'AppController') -> dict[str, Any]:
  """
- Returns the current status of the application.
- [SDM: src/app_controller.py:_api_status]
+ 
+  Returns the current status of the application.
+  [SDM: src/app_controller.py:_api_status]
  """
  return {
   "provider": controller.current_provider,
@@ -249,8 +261,9 @@ def _api_status(controller: 'AppController') -> dict[str, Any]:
 
 def _api_generate(controller: 'AppController', req: GenerateRequest) -> dict[str, Any]:
  """
- Triggers an AI generation request using the current project context.
- [SDM: src/app_controller.py:_api_generate]
+ 
+  Triggers an AI generation request using the current project context.
+  [SDM: src/app_controller.py:_api_generate]
  """
  if not req.prompt.strip():
   raise HTTPException(status_code=400, detail="Prompt cannot be empty")
@@ -313,15 +326,17 @@ def _api_generate(controller: 'AppController', req: GenerateRequest) -> dict[str
 
 async def _api_stream(controller: 'AppController', req: GenerateRequest) -> Any:
  """
- Placeholder for streaming AI generation responses (Not yet implemented).       
- [SDM: src/app_controller.py:_api_stream]
+ 
+  Placeholder for streaming AI generation responses (Not yet implemented).       
+  [SDM: src/app_controller.py:_api_stream]
  """
  raise HTTPException(status_code=501, detail="Streaming endpoint (/api/v1/stream) is not yet supported in this version.")
 
 def _api_pending_actions(controller: 'AppController') -> list[dict[str, Any]]:  
  """
- Lists all pending PowerShell scripts awaiting confirmation.
- [SDM: src/app_controller.py:_api_pending_actions]
+ 
+  Lists all pending PowerShell scripts awaiting confirmation.
+  [SDM: src/app_controller.py:_api_pending_actions]
  """
  with controller._pending_dialog_lock:
   return [
@@ -331,8 +346,9 @@ def _api_pending_actions(controller: 'AppController') -> list[dict[str, Any]]:
 
 def _api_confirm_action(controller: 'AppController', action_id: str, req: ConfirmRequest) -> dict[str, str]:
  """
- Approves or rejects a pending action.
- [SDM: src/app_controller.py:_api_confirm_action]
+ 
+  Approves or rejects a pending action.
+  [SDM: src/app_controller.py:_api_confirm_action]
  """
  with controller._pending_dialog_lock:
   if action_id not in controller._pending_actions:
@@ -348,8 +364,9 @@ def _api_confirm_action(controller: 'AppController', action_id: str, req: Confir
 
 def _api_list_sessions(controller: 'AppController') -> list[str]:
  """
- Lists all session IDs.
- [SDM: src/app_controller.py:_api_list_sessions]
+ 
+  Lists all session IDs.
+  [SDM: src/app_controller.py:_api_list_sessions]
  """
  log_dir = paths.get_logs_dir()
  if not log_dir.exists():
@@ -358,8 +375,9 @@ def _api_list_sessions(controller: 'AppController') -> list[str]:
 
 def _api_get_session(controller: 'AppController', session_id: str) -> dict[str, Any]:
  """
- Returns the content of the comms.log for a specific session.
- [SDM: src/app_controller.py:_api_get_session]
+ 
+  Returns the content of the comms.log for a specific session.
+  [SDM: src/app_controller.py:_api_get_session]
  """
  log_path = paths.get_logs_dir() / session_id / "comms.log"
  if not log_path.exists():
@@ -368,8 +386,9 @@ def _api_get_session(controller: 'AppController', session_id: str) -> dict[str,
 
 def _api_delete_session(controller: 'AppController', session_id: str) -> dict[str, str]:
  """
- Deletes a specific session directory.
- [SDM: src/app_controller.py:_api_delete_session]
+ 
+  Deletes a specific session directory.
+  [SDM: src/app_controller.py:_api_delete_session]
  """
  log_path = paths.get_logs_dir() / session_id
  if not log_path.exists() or not log_path.is_dir():
@@ -380,8 +399,9 @@ def _api_delete_session(controller: 'AppController', session_id: str) -> dict[st
 
 def _api_get_context(controller: 'AppController') -> dict[str, Any]:
  """
- Returns the current aggregated project context.
- [SDM: src/app_controller.py:_api_get_context]
+ 
+  Returns the current aggregated project context.
+  [SDM: src/app_controller.py:_api_get_context]
  """
  try:
   md, path, file_items, stable_md, disc_text = controller._do_generate()        
@@ -398,8 +418,9 @@ def _api_get_context(controller: 'AppController') -> dict[str, Any]:
 
 def _api_token_stats(controller: 'AppController') -> dict[str, Any]:
  """
- Returns current token usage and budget statistics.
- [SDM: src/app_controller.py:_api_token_stats]
+ 
+  Returns current token usage and budget statistics.
+  [SDM: src/app_controller.py:_api_token_stats]
  """
  return controller._token_stats
 #endregion
@@ -618,6 +639,9 @@ def _handle_mma_spawn_approval(controller: 'AppController', task: dict):
    class AutoSpawnDialog:
     def __init__(self, t): self.t = t
     def wait(self):
+     """
+     [C: src/mcp_client.py:StdioMCPServer.stop, src/multi_agent_conductor.py:confirm_execution, src/multi_agent_conductor.py:confirm_spawn, tests/conftest.py:live_gui, tests/test_ai_client_concurrency.py:run_t1, tests/test_ai_client_concurrency.py:run_t2, tests/test_ai_server.py:test_server_handles_list_models, tests/test_ai_server.py:test_server_handles_unknown_method, tests/test_ai_server.py:test_server_loads_google_genai_quickly, tests/test_ai_server.py:test_server_outputs_ready_marker, tests/test_ai_server.py:test_server_starts_and_exits_cleanly, tests/test_conductor_engine_abort.py:worker, tests/test_parallel_execution.py:test_worker_pool_limit]
+     """
      return {'approved': True, 'abort': False, 'prompt': self.t.get("prompt"), 'context_md': self.t.get("context_md")}
    task["dialog_container"][0] = AutoSpawnDialog(task)
   return
@@ -707,13 +731,14 @@ def _handle_hide_patch_modal(controller: 'AppController', task: dict):
 
 class AppController:
  """
- The headless controller for the Manual Slop application.
- Owns the application state and manages background services.
+ 
+  The headless controller for the Manual Slop application.
+  Owns the application state and manages background services.
  """
 
  def __init__(self):
   """
-  [C: src/app_controller.py:AppController.__init__]
+    [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   # --- Locks ---
   self._send_thread_lock: threading.Lock = threading.Lock()
@@ -1103,8 +1128,9 @@ class AppController:
 
  def _update_inject_preview(self) -> None:
   """
-  Updates the preview content based on the selected file and injection mode.
-  [C: src/gui_2.py:App._gui_func, tests/test_skeleton_injection.py:test_update_inject_preview_full, tests/test_skeleton_injection.py:test_update_inject_preview_skeleton, tests/test_skeleton_injection.py:test_update_inject_preview_truncation]
+  
+    Updates the preview content based on the selected file and injection mode.
+    [C: src/gui_2.py:App._render_text_viewer_window, tests/test_skeleton_injection.py:test_update_inject_preview_full, tests/test_skeleton_injection.py:test_update_inject_preview_skeleton, tests/test_skeleton_injection.py:test_update_inject_preview_truncation]
   """
   if not self._inject_file_path:
    self._inject_preview = ""
@@ -1349,8 +1375,9 @@ class AppController:
 
  def _process_pending_gui_tasks(self) -> None:
   """
-  Processes pending GUI tasks from the queue on the main render thread.
-  [C: src/gui_2.py:App._gui_func, tests/test_api_hook_extensions.py:test_app_processes_new_actions, tests/test_gui_updates.py:test_gui_updates_on_event, tests/test_live_gui_integration_v2.py:test_user_request_error_handling, tests/test_live_gui_integration_v2.py:test_user_request_integration_flow, tests/test_mma_orchestration_gui.py:test_handle_ai_response_fallback, tests/test_mma_orchestration_gui.py:test_handle_ai_response_with_stream_id, tests/test_mma_orchestration_gui.py:test_process_pending_gui_tasks_mma_spawn_approval, tests/test_mma_orchestration_gui.py:test_process_pending_gui_tasks_show_track_proposal, tests/test_process_pending_gui_tasks.py:test_gcli_path_updates_adapter, tests/test_process_pending_gui_tasks.py:test_redundant_calls_in_process_pending_gui_tasks]
+  
+    Processes pending GUI tasks from the queue on the main render thread.
+    [C: src/gui_2.py:App._render_main_interface, tests/test_api_hook_extensions.py:test_app_processes_new_actions, tests/test_gui_updates.py:test_gui_updates_on_event, tests/test_live_gui_integration_v2.py:test_user_request_error_handling, tests/test_live_gui_integration_v2.py:test_user_request_integration_flow, tests/test_mma_orchestration_gui.py:test_handle_ai_response_fallback, tests/test_mma_orchestration_gui.py:test_handle_ai_response_with_stream_id, tests/test_mma_orchestration_gui.py:test_process_pending_gui_tasks_mma_spawn_approval, tests/test_mma_orchestration_gui.py:test_process_pending_gui_tasks_show_track_proposal, tests/test_process_pending_gui_tasks.py:test_gcli_path_updates_adapter, tests/test_process_pending_gui_tasks.py:test_process_pending_gui_tasks_drag, tests/test_process_pending_gui_tasks.py:test_process_pending_gui_tasks_right_click, tests/test_process_pending_gui_tasks.py:test_redundant_calls_in_process_pending_gui_tasks]
   """
   now = time.time()
   if hasattr(self, 'event_queue') and hasattr(self.event_queue, 'websocket_server') and self.event_queue.websocket_server:
@@ -1377,8 +1404,9 @@ class AppController:
 
  def _process_pending_history_adds(self) -> None:
   """
-  Synchronizes pending history entries to the active discussion and project state.
-  [C: src/gui_2.py:App._gui_func]
+  
+    Synchronizes pending history entries to the active discussion and project state.
+    [C: src/gui_2.py:App._render_main_interface]
   """
   with self._pending_history_adds_lock:
    items = self._pending_history_adds[:]
@@ -1405,8 +1433,9 @@ class AppController:
 
  def _process_pending_tool_calls(self) -> bool:
   """
-  Drains pending tool calls into the tool log. Returns True if any were processed.
-  [C: src/gui_2.py:App._gui_func]
+  
+    Drains pending tool calls into the tool log. Returns True if any were processed.
+    [C: src/gui_2.py:App._render_main_interface]
   """
   with self._pending_tool_calls_lock:
    items = self._pending_tool_calls[:]
@@ -1452,8 +1481,9 @@ class AppController:
 
  def init_state(self):
   """
-  Initializes the application state from configurations.
-  [C: src/gui_2.py:App.__init__, src/gui_2.py:App._render_paths_panel, src/gui_2.py:App._save_paths, tests/test_app_controller_mcp.py:test_app_controller_mcp_loading, tests/test_app_controller_mcp.py:test_app_controller_mcp_project_override, tests/test_external_mcp_e2e.py:test_external_mcp_e2e_refresh_and_call, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.test_app_controller_init_state_loads_prompts]
+  
+    Initializes the application state from configurations.
+    [C: src/gui_2.py:App.__init__, src/gui_2.py:App._save_paths, src/gui_2.py:App._set_external_editor_default, tests/test_app_controller_mcp.py:test_app_controller_mcp_loading, tests/test_app_controller_mcp.py:test_app_controller_mcp_project_override, tests/test_context_composition_decoupled.py:test_do_generate_uses_context_files, tests/test_external_mcp_e2e.py:test_external_mcp_e2e_refresh_and_call, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.test_app_controller_init_state_loads_prompts]
   """
   self.active_tickets = []
   self.ui_separate_task_dag = False
@@ -1628,7 +1658,7 @@ class AppController:
 
  async def refresh_external_mcps(self):
   """
-   [C: tests/test_external_mcp_e2e.py:test_external_mcp_e2e_refresh_and_call]
+    [C: tests/test_external_mcp_e2e.py:test_external_mcp_e2e_refresh_and_call]
   """
   await mcp_client.get_external_mcp_manager().stop_all()
   # Start servers with auto_start=True
@@ -1638,7 +1668,7 @@ class AppController:
 
  def cb_load_prior_log(self, path: Optional[str] = None) -> None:
   """
-   [C: src/gui_2.py:App._render_log_management]
+    [C: src/gui_2.py:App._render_log_management, src/gui_2.py:App.cb_load_prior_log]
   """
   if not path:
    return
@@ -1822,7 +1852,7 @@ class AppController:
 
  def cb_exit_prior_session(self):
   """
-   [C: src/gui_2.py:App._render_comms_history_panel, src/gui_2.py:App._render_discussion_panel]
+    [C: src/gui_2.py:App._render_comms_history_panel, src/gui_2.py:App._render_prior_session_view]
   """
   self.is_viewing_prior_session = False
   if self._current_session_usage:
@@ -1916,7 +1946,7 @@ class AppController:
 
  def _fetch_models(self, provider: str) -> None:
   """
-   [C: src/gui_2.py:App.run]
+    [C: src/gui_2.py:App.run]
   """
   self.ai_status = "fetching models..."
 
@@ -1941,9 +1971,10 @@ class AppController:
 
  def start_services(self, app: Any = None):
   """
-
-   Starts background threads.
-   [C: src/gui_2.py:App.__init__]
+  
+  
+     Starts background threads.
+    [C: src/gui_2.py:App.__init__]
   """
   self._prune_old_logs()
   self._init_ai_and_hooks(app)
@@ -1952,9 +1983,10 @@ class AppController:
 
  def shutdown(self) -> None:
   """
-
-   Stops background threads and cleans up resources.
-   [C: src/gui_2.py:App.run, src/gui_2.py:App.shutdown, tests/conftest.py:app_instance, tests/conftest.py:mock_app]
+  
+  
+     Stops background threads and cleans up resources.
+    [C: src/gui_2.py:App.run, src/gui_2.py:App.shutdown, tests/conftest.py:app_instance, tests/conftest.py:mock_app]
   """
   from src import ai_client
   ai_client.cleanup()
@@ -2055,9 +2087,10 @@ class AppController:
 
  def _handle_request_event(self, event: events.UserRequestEvent) -> None:
   """
-
-   Processes a UserRequestEvent by calling the AI client.
-   [C: tests/test_live_gui_integration_v2.py:test_user_request_error_handling, tests/test_live_gui_integration_v2.py:test_user_request_integration_flow, tests/test_rag_integration.py:test_rag_integration]
+  
+  
+     Processes a UserRequestEvent by calling the AI client.
+    [C: tests/test_live_gui_integration_v2.py:test_user_request_error_handling, tests/test_live_gui_integration_v2.py:test_user_request_integration_flow, tests/test_rag_integration.py:test_rag_integration]
   """
   self.ai_status = 'sending...'
   ai_client.set_current_tier(None) # Ensure main discussion is untagged
@@ -2117,7 +2150,7 @@ class AppController:
 
  def _on_comms_entry(self, entry: Dict[str, Any]) -> None:
   """
-   [C: tests/test_app_controller_offloading.py:test_on_comms_entry_tool_result_offloading]
+    [C: tests/test_app_controller_offloading.py:test_on_comms_entry_tool_result_offloading]
   """
   optimized_entry = self._offload_entry_payload(entry)
   session_logger.log_comms(optimized_entry)
@@ -2214,7 +2247,7 @@ class AppController:
 
  def _on_tool_log(self, script: str, result: str) -> None:
   """
-   [C: tests/test_app_controller_offloading.py:test_on_tool_log_offloading]
+    [C: tests/test_app_controller_offloading.py:test_on_tool_log_offloading]
   """
   session_logger.log_tool_call(script, result, None)
   session_logger.log_tool_output(result)
@@ -2224,7 +2257,7 @@ class AppController:
 
  def _on_api_event(self, event_name: str = "generic_event", **kwargs: Any) -> None:
   """
-   [C: tests/test_gui_updates.py:test_gui_updates_on_event]
+    [C: tests/test_gui_updates.py:test_gui_updates_on_event]
   """
   payload = kwargs.get("payload", {})
   # Push to background event queue, NOT GUI queue
@@ -2242,7 +2275,7 @@ class AppController:
 
  def _confirm_and_run(self, script: str, base_dir: str, qa_callback: Optional[Callable[[str], str]] = None, patch_callback: Optional[Callable[[str, str], Optional[str]]] = None) -> Optional[str]:
   """
-   [C: tests/test_arch_boundary_phase2.py:TestArchBoundaryPhase2.test_mutating_tool_triggers_callback, tests/test_arch_boundary_phase2.py:TestArchBoundaryPhase2.test_rejection_prevents_dispatch]
+    [C: tests/test_arch_boundary_phase2.py:TestArchBoundaryPhase2.test_mutating_tool_triggers_callback, tests/test_arch_boundary_phase2.py:TestArchBoundaryPhase2.test_rejection_prevents_dispatch]
   """
   if self.test_hooks_enabled and not getattr(self, "ui_manual_approve", False):
    self.ai_status = "running powershell..."
@@ -2282,7 +2315,7 @@ class AppController:
 
  def _append_tool_log(self, script: str, result: str, source_tier: str | None = None, elapsed_ms: float = 0.0) -> None:
   """
-   [C: tests/test_mma_agent_focus_phase1.py:test_append_tool_log_dict_has_source_tier, tests/test_mma_agent_focus_phase1.py:test_append_tool_log_dict_keys, tests/test_mma_agent_focus_phase1.py:test_append_tool_log_stores_dict]
+    [C: tests/test_mma_agent_focus_phase1.py:test_append_tool_log_dict_has_source_tier, tests/test_mma_agent_focus_phase1.py:test_append_tool_log_dict_keys, tests/test_mma_agent_focus_phase1.py:test_append_tool_log_stores_dict]
   """
   self._tool_log.append({"script": script, "result": result, "ts": time.time(), "source_tier": source_tier})
   tool_name = self._extract_tool_name(script)
@@ -2380,8 +2413,10 @@ class AppController:
 
  def create_api(self) -> FastAPI:
   """
-  Creates and configures the FastAPI application for headless mode.
-  [SDM: src/app_controller.py:AppController.create_api]
+  
+    Creates and configures the FastAPI application for headless mode.
+    [SDM: src/app_controller.py:AppController.create_api]
+    [C: src/gui_2.py:App.run, tests/test_headless_service.py:TestHeadlessAPI.setUp]
   """
   api = FastAPI(title="Manual Slop Headless API")
   API_KEY_NAME = "X-API-KEY"
@@ -2393,12 +2428,21 @@ class AppController:
    return _api_health(self)
   @api.get("/api/gui/state", dependencies=[Depends(get_api_key)])
   def get_gui_state() -> dict[str, Any]:
+   """
+   [C: tests/test_ai_settings_layout.py:test_change_provider_via_hook, tests/test_ai_settings_layout.py:test_set_params_via_custom_callback, tests/test_conductor_api_hook_integration.py:simulate_conductor_phase_completion, tests/test_external_editor_gui.py:test_button_click_is_received, tests/test_external_editor_gui.py:test_patch_modal_shows_with_configured_editor, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui_text_viewer.py:test_text_viewer_state_update, tests/test_hooks.py:test_live_hook_server_responses, tests/test_live_gui_integration_v2.py:test_api_gui_state_live, tests/test_live_workflow.py:test_full_live_workflow, tests/test_live_workflow.py:wait_for_value, tests/test_patch_modal_gui.py:test_patch_apply_modal_workflow, tests/test_patch_modal_gui.py:test_patch_modal_appears_on_trigger, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim, tests/test_saved_presets_sim.py:test_preset_manager_modal, tests/test_saved_presets_sim.py:test_preset_switching, tests/test_task_dag_popout_sim.py:test_task_dag_popout, tests/test_tool_management_layout.py:test_tool_management_gettable_fields, tests/test_tool_management_layout.py:test_tool_management_state_updates, tests/test_tool_presets_sim.py:test_tool_preset_switching, tests/test_usage_analytics_popout_sim.py:test_usage_analytics_popout, tests/test_visual_mma.py:test_visual_mma_components]
+   """
    return _api_get_gui_state(self)
   @api.get("/api/gui/mma_status", dependencies=[Depends(get_api_key)])
   def get_mma_status() -> dict[str, Any]:
+   """
+   [C: tests/test_headless_simulation.py:test_mma_track_lifecycle_simulation, tests/test_live_workflow.py:test_full_live_workflow, tests/test_mma_concurrent_tracks_sim.py:_poll_mma_status, tests/test_mma_concurrent_tracks_sim.py:test_mma_concurrent_tracks_execution, tests/test_mma_concurrent_tracks_stress_sim.py:test_mma_concurrent_tracks_stress, tests/test_mma_step_mode_sim.py:_poll_mma_status, tests/test_mma_step_mode_sim.py:test_mma_step_mode_approval_flow, tests/test_visual_mma.py:test_visual_mma_components, tests/test_visual_orchestration.py:test_mma_epic_lifecycle, tests/test_visual_sim_gui_ux.py:test_gui_ux_event_routing, tests/test_visual_sim_mma_v2.py:_poll]
+   """
    return _api_get_mma_status(self)
   @api.post("/api/gui", dependencies=[Depends(get_api_key)])
   def post_gui(req: dict) -> dict[str, str]:
+   """
+   [C: tests/test_ai_settings_layout.py:test_set_params_via_custom_callback, tests/test_api_hook_client.py:test_post_gui_success, tests/test_gui2_parity.py:test_gui2_custom_callback_hook_works, tests/test_gui2_parity.py:test_gui2_set_value_hook_works]
+   """
    return _api_post_gui(self, req)
   @api.get("/api/session", dependencies=[Depends(get_api_key)])
   def get_api_session() -> dict[str, Any]:
@@ -2411,6 +2455,9 @@ class AppController:
    return _api_get_api_project(self)
   @api.get("/api/performance", dependencies=[Depends(get_api_key)])
   def get_performance() -> dict[str, Any]:
+   """
+   [C: tests/test_gui2_performance.py:test_performance_benchmarking, tests/test_gui_performance_requirements.py:test_idle_performance_requirements, tests/test_gui_stress_performance.py:test_comms_volume_stress_performance, tests/test_selectable_ui.py:test_selectable_label_stability]
+   """
    return _api_get_performance(self)
   @api.get("/api/gui/diagnostics", dependencies=[Depends(get_api_key)])
   def get_diagnostics() -> dict[str, Any]:
@@ -2435,12 +2482,18 @@ class AppController:
    return _api_list_sessions(self)
   @api.get("/api/v1/sessions/{session_id}", dependencies=[Depends(get_api_key)])
   def get_session(session_id: str) -> dict[str, Any]:
+   """
+   [C: simulation/ping_pong.py:main, simulation/sim_context.py:ContextSimulation.run, simulation/sim_execution.py:ExecutionSimulation.run, simulation/sim_tools.py:ToolsSimulation.run, simulation/workflow_sim.py:WorkflowSimulator.run_discussion_turn_async, simulation/workflow_sim.py:WorkflowSimulator.wait_for_ai_response, tests/test_api_hook_client.py:test_get_session_success, tests/test_gui_stress_performance.py:test_comms_volume_stress_performance, tests/test_live_workflow.py:test_full_live_workflow, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim]
+   """
    return _api_get_session(self, session_id)
   @api.delete("/api/v1/sessions/{session_id}", dependencies=[Depends(get_api_key)])
   def delete_session(session_id: str) -> dict[str, str]:
    return _api_delete_session(self, session_id)
   @api.get("/api/v1/context", dependencies=[Depends(get_api_key)])
   def get_context() -> dict[str, Any]:
+   """
+   [C: src/fuzzy_anchor.py:FuzzyAnchor.create_slice]
+   """
    return _api_get_context(self)
   @api.get("/api/v1/token_stats", dependencies=[Depends(get_api_key)])
   def token_stats() -> dict[str, Any]:
@@ -2464,14 +2517,14 @@ class AppController:
 
  def _cb_reset_base_prompt(self, user_data=None) -> None:
   """
-   [C: src/gui_2.py:App._render_system_prompts_panel]
+    [C: src/gui_2.py:App._render_system_prompts_panel]
   """
   self.ui_base_system_prompt = ai_client._SYSTEM_PROMPT
   self.ui_use_default_base_prompt = False
 
  def _cb_clear_summary_cache(self, user_data=None) -> None:
   """
-   [C: src/gui_2.py:App._render_files_panel]
+    [C: src/gui_2.py:App._render_files_panel]
   """
   from src import summarize
   summarize._summary_cache.clear()
@@ -2483,7 +2536,7 @@ class AppController:
 
  def _cb_show_base_prompt_diff(self, user_data=None) -> None:
   """
-   [C: src/gui_2.py:App._render_system_prompts_panel]
+    [C: src/gui_2.py:App._render_system_prompts_panel]
   """
   self._show_base_prompt_diff_modal = True
 
@@ -2502,7 +2555,7 @@ class AppController:
 
  def _switch_project(self, path: str) -> None:
   """
-   [C: src/gui_2.py:App._render_projects_panel]
+    [C: src/gui_2.py:App._render_projects_panel]
   """
   if path == self.active_project_path:
    return
@@ -2529,7 +2582,7 @@ class AppController:
  def _refresh_from_project(self) -> None:
   # Deserialize FileItems in files.paths
   """
-   [C: tests/test_mma_dashboard_refresh.py:test_mma_dashboard_initialization_refresh, tests/test_mma_dashboard_refresh.py:test_mma_dashboard_refresh]
+    [C: tests/test_mma_dashboard_refresh.py:test_mma_dashboard_initialization_refresh, tests/test_mma_dashboard_refresh.py:test_mma_dashboard_refresh, tests/test_view_presets.py:test_load_presets_from_project_legacy_dict, tests/test_view_presets.py:test_load_presets_from_project_list]
   """
   raw_paths = self.project.get("files", {}).get("paths", [])
   self.files = []
@@ -2612,7 +2665,7 @@ class AppController:
 
  def _cb_save_workspace_profile(self, name: str, scope: str = 'project') -> None:
   """
-   [C: src/gui_2.py:App._render_save_workspace_profile_modal]
+    [C: src/gui_2.py:App._render_save_workspace_profile_modal]
   """
   if not hasattr(self, '_app') or not self._app:
    return
@@ -2623,7 +2676,7 @@ class AppController:
 
  def _cb_delete_workspace_profile(self, name: str, scope: str = 'project') -> None:
   """
-   [C: src/gui_2.py:App._show_menus]
+    [C: src/gui_2.py:App._show_menus]
   """
   self.workspace_manager.delete_profile(name, scope=scope)
   self.workspace_profiles = self.workspace_manager.load_all_profiles()
@@ -2632,7 +2685,7 @@ class AppController:
 
  def _cb_load_workspace_profile(self, name: str) -> None:
   """
-   [C: src/gui_2.py:App._show_menus]
+    [C: src/gui_2.py:App._show_menus]
   """
   if name in self.workspace_profiles:
    profile = self.workspace_profiles[name]
@@ -2641,7 +2694,7 @@ class AppController:
 
  def _apply_preset(self, name: str, scope: str) -> None:
   """
-   [C: src/gui_2.py:App._render_system_prompts_panel]
+    [C: src/gui_2.py:App._render_system_prompts_panel]
   """
   if name == "None":
    if scope == "global":
@@ -2661,7 +2714,7 @@ class AppController:
 
  def _cb_save_preset(self, name, content, scope):
   """
-   [C: src/gui_2.py:App._render_preset_manager_content]
+    [C: src/gui_2.py:App._render_preset_manager_content]
   """
   if not name or not name.strip():
    raise ValueError("Preset name cannot be empty or whitespace.")
@@ -2674,14 +2727,14 @@ class AppController:
 
  def _cb_delete_preset(self, name, scope):
   """
-   [C: src/gui_2.py:App._render_preset_manager_content]
+    [C: src/gui_2.py:App._render_preset_manager_content]
   """
   self.preset_manager.delete_preset(name, scope)
   self.presets = self.preset_manager.load_all()
 
  def _cb_save_tool_preset(self, name, categories, scope):
   """
-   [C: src/gui_2.py:App._render_tool_preset_manager_content]
+    [C: src/gui_2.py:App._render_tool_preset_manager_content]
   """
   preset = models.ToolPreset(name=name, categories=categories)
   self.tool_preset_manager.save_preset(preset, scope)
@@ -2689,14 +2742,14 @@ class AppController:
 
  def _cb_delete_tool_preset(self, name, scope):
   """
-   [C: src/gui_2.py:App._render_tool_preset_manager_content]
+    [C: src/gui_2.py:App._render_tool_preset_manager_content]
   """
   self.tool_preset_manager.delete_preset(name, scope)
   self.tool_presets = self.tool_preset_manager.load_all_presets()
 
  def _cb_save_bias_profile(self, profile: models.BiasProfile, scope: str = "project"):
   """
-   [C: src/gui_2.py:App._render_tool_preset_manager_content]
+    [C: src/gui_2.py:App._render_tool_preset_manager_content]
   """
   self.tool_preset_manager.save_bias_profile(profile, scope)
   self.bias_profiles = self.tool_preset_manager.load_all_bias_profiles()
@@ -2707,21 +2760,21 @@ class AppController:
 
  def _cb_save_persona(self, persona: models.Persona, scope: str = "project") -> None:
   """
-   [C: src/gui_2.py:App._render_persona_editor_window]
+    [C: src/gui_2.py:App._render_persona_editor_window]
   """
   self.persona_manager.save_persona(persona, scope)
   self.personas = self.persona_manager.load_all()
 
  def _cb_delete_persona(self, name: str, scope: str = "project") -> None:
   """
-   [C: src/gui_2.py:App._render_persona_editor_window]
+    [C: src/gui_2.py:App._render_persona_editor_window]
   """
   self.persona_manager.delete_persona(name, scope)
   self.personas = self.persona_manager.load_all()
 
  def _cb_save_view_preset(self, name: str, f_item: models.FileItem) -> None:
   """
-   [C: src/gui_2.py:App._render_files_panel]
+    [C: src/gui_2.py:App._render_context_files_table, tests/test_view_presets.py:test_save_view_preset]
   """
   preset = models.NamedViewPreset(
    name=name,
@@ -2739,7 +2792,7 @@ class AppController:
 
  def _cb_apply_view_preset(self, name: str, f_item: models.FileItem) -> None:
   """
-   [C: src/gui_2.py:App._render_files_panel]
+    [C: src/gui_2.py:App._render_context_files_table, tests/test_view_presets.py:test_apply_view_preset]
   """
   preset = next((vp for vp in self.view_presets if vp.name == name), None)
   if preset:
@@ -2749,7 +2802,7 @@ class AppController:
 
  def _cb_delete_view_preset(self, name: str) -> None:
   """
-   [C: src/gui_2.py:App._render_files_panel]
+    [C: tests/test_view_presets.py:test_delete_view_preset]
   """
   self.view_presets = [vp for vp in self.view_presets if vp.name != name]
   self._flush_to_project()
@@ -2757,7 +2810,7 @@ class AppController:
 
  def _cb_load_track(self, track_id: str) -> None:
   """
-   [C: src/gui_2.py:App._render_mma_dashboard]
+    [C: src/gui_2.py:App._render_mma_track_browser]
   """
   state = project_manager.load_track_state(track_id, self.active_project_root)
   if state:
@@ -2791,7 +2844,7 @@ class AppController:
 
  def _save_active_project(self) -> None:
   """
-   [C: src/gui_2.py:App.delete_context_preset, src/gui_2.py:App.save_context_preset]
+    [C: src/gui_2.py:App.delete_context_preset, src/gui_2.py:App.save_context_preset]
   """
   if self.active_project_path:
    try:
@@ -2802,7 +2855,7 @@ class AppController:
 
  def _get_discussion_names(self) -> list[str]:
   """
-   [C: src/gui_2.py:App._render_discussion_panel]
+    [C: src/gui_2.py:App._render_discussion_selector, src/gui_2.py:App._render_theme_panel]
   """
   disc_sec = self.project.get("discussion", {})
   discussions = disc_sec.get("discussions", {})
@@ -2810,7 +2863,7 @@ class AppController:
 
  def _switch_discussion(self, name: str) -> None:
   """
-   [C: src/gui_2.py:App._render_discussion_panel, src/gui_2.py:App._render_takes_panel]
+    [C: src/gui_2.py:App._render_discussion_selector, src/gui_2.py:App._render_takes_panel, src/gui_2.py:App._render_theme_panel]
   """
   self._flush_disc_entries_to_project()
   disc_sec = self.project.get("discussion", {})
@@ -2831,7 +2884,7 @@ class AppController:
 
  def _flush_disc_entries_to_project(self) -> None:
   """
-   [C: src/gui_2.py:App._render_discussion_panel]
+    [C: src/gui_2.py:App._render_discussion_selector, src/gui_2.py:App._render_theme_panel]
   """
   history_strings = [project_manager.entry_to_str(e) for e in self.disc_entries]
   if self.active_track and self._track_discussion_active:
@@ -2846,7 +2899,7 @@ class AppController:
 
  def _create_discussion(self, name: str) -> None:
   """
-   [C: src/gui_2.py:App._render_discussion_panel, src/gui_2.py:App._render_synthesis_panel, src/gui_2.py:App._render_takes_panel]
+    [C: src/gui_2.py:App._render_discussion_metadata, src/gui_2.py:App._render_synthesis_panel, src/gui_2.py:App._render_takes_panel]
   """
   disc_sec = self.project.setdefault("discussion", {})
   discussions = disc_sec.setdefault("discussions", {})
@@ -2860,7 +2913,7 @@ class AppController:
 
  def _branch_discussion(self, index: int) -> None:
   """
-   [C: src/gui_2.py:App._render_discussion_panel]
+    [C: src/gui_2.py:App._render_discussion_entry]
   """
   self._flush_disc_entries_to_project()
   # Generate a unique branch name
@@ -2877,7 +2930,7 @@ class AppController:
   self._switch_discussion(new_name)
  def _rename_discussion(self, old_name: str, new_name: str) -> None:
   """
-   [C: src/gui_2.py:App._render_discussion_panel]
+    [C: src/gui_2.py:App._render_discussion_metadata]
   """
   disc_sec = self.project.get("discussion", {})
   discussions = disc_sec.get("discussions", {})
@@ -2893,7 +2946,7 @@ class AppController:
 
  def _delete_discussion(self, name: str) -> None:
   """
-   [C: src/gui_2.py:App._render_discussion_panel]
+    [C: src/gui_2.py:App._render_discussion_metadata]
   """
   disc_sec = self.project.get("discussion", {})
   discussions = disc_sec.get("discussions", {})
@@ -2909,7 +2962,7 @@ class AppController:
 
  def _handle_mma_respond(self, approved: bool, payload: str | None = None, abort: bool = False, prompt: str | None = None, context_md: str | None = None) -> None:
   """
-   [C: src/gui_2.py:App._gui_func, src/gui_2.py:App._handle_approve_mma_step, src/gui_2.py:App._handle_approve_spawn]
+    [C: src/gui_2.py:App._handle_approve_mma_step, src/gui_2.py:App._handle_approve_spawn, src/gui_2.py:App._render_mma_modals]
   """
   if self._pending_mma_approvals:
    task = self._pending_mma_approvals.pop(0)
@@ -2937,9 +2990,10 @@ class AppController:
 
  def _handle_approve_ask(self) -> None:
   """
-
-   Responds with approval for a pending /api/ask request.
-   [C: src/gui_2.py:App.__init__, src/gui_2.py:App._gui_func]
+  
+  
+     Responds with approval for a pending /api/ask request.
+    [C: src/gui_2.py:App._handle_approve_ask, src/gui_2.py:App._render_mma_modals]
   """
   if not self._ask_request_id: return
   request_id = self._ask_request_id
@@ -2959,9 +3013,10 @@ class AppController:
 
  def _handle_reject_ask(self) -> None:
   """
-
-   Responds with rejection for a pending /api/ask request.
-   [C: src/gui_2.py:App._gui_func]
+  
+  
+     Responds with rejection for a pending /api/ask request.
+    [C: src/gui_2.py:App._render_mma_modals]
   """
   if not self._ask_request_id: return
   request_id = self._ask_request_id
@@ -2981,9 +3036,10 @@ class AppController:
 
  def _handle_reset_session(self) -> None:
   """
-
-   Logic for resetting the AI session and GUI state.
-   [C: src/gui_2.py:App._render_message_panel]
+  
+  
+     Logic for resetting the AI session and GUI state.
+    [C: src/gui_2.py:App._render_message_panel]
   """
   ai_client.reset_session()
   ai_client.clear_comms_log()
@@ -3034,14 +3090,15 @@ class AppController:
 
  def _handle_md_only(self) -> None:
   """
-
-   Logic for the 'MD Only' action.
-   [C: src/gui_2.py:App._render_message_panel]
+  
+  
+     Logic for the 'MD Only' action.
+    [C: src/gui_2.py:App._render_message_panel]
   """
 
   def worker():
    """
-    [C: tests/test_symbol_parsing.py:test_handle_generate_send_appends_definitions, tests/test_symbol_parsing.py:test_handle_generate_send_no_symbols]
+      [C: tests/test_symbol_parsing.py:test_handle_generate_send_appends_definitions, tests/test_symbol_parsing.py:test_handle_generate_send_no_symbols]
    """
    try:
     md, path, *_ = self._do_generate()
@@ -3056,14 +3113,15 @@ class AppController:
 
  def _handle_generate_send(self) -> None:
   """
-
-   Logic for the 'Gen + Send' action.
-   [C: src/gui_2.py:App._render_message_panel, src/gui_2.py:App._render_synthesis_panel, src/gui_2.py:App._render_takes_panel, tests/test_gui_events_v2.py:test_handle_generate_send_pushes_event, tests/test_symbol_parsing.py:test_handle_generate_send_appends_definitions, tests/test_symbol_parsing.py:test_handle_generate_send_no_symbols]
+  
+  
+     Logic for the 'Gen + Send' action.
+    [C: src/gui_2.py:App._render_message_panel, src/gui_2.py:App._render_synthesis_panel, src/gui_2.py:App._render_takes_panel, tests/test_gui_events_v2.py:test_handle_generate_send_pushes_event, tests/test_symbol_parsing.py:test_handle_generate_send_appends_definitions, tests/test_symbol_parsing.py:test_handle_generate_send_no_symbols]
   """
 
   def worker():
    """
-    [C: tests/test_symbol_parsing.py:test_handle_generate_send_appends_definitions, tests/test_symbol_parsing.py:test_handle_generate_send_no_symbols]
+      [C: tests/test_symbol_parsing.py:test_handle_generate_send_appends_definitions, tests/test_symbol_parsing.py:test_handle_generate_send_no_symbols]
    """
    try:
     md, path, file_items, stable_md, disc_text = self._do_generate()
@@ -3122,7 +3180,7 @@ class AppController:
 
  def _refresh_api_metrics(self, payload: dict[str, Any], md_content: str | None = None) -> None:
   """
-   [C: tests/test_gui_updates.py:test_telemetry_data_updates_correctly]
+    [C: tests/test_gui_updates.py:test_telemetry_data_updates_correctly]
   """
   if "latency" in payload:
    self.session_usage["last_latency"] = payload["latency"]
@@ -3149,7 +3207,7 @@ class AppController:
 
  def clear_cache(self) -> None:
   """
-   [C: src/gui_2.py:App._render_cache_panel]
+    [C: src/gui_2.py:App._render_cache_panel]
   """
   from src import ai_client
   ai_client.cleanup()
@@ -3157,7 +3215,7 @@ class AppController:
 
  def get_session_insights(self) -> Dict[str, Any]:
   """
-   [C: src/gui_2.py:App._render_session_insights_panel]
+    [C: src/gui_2.py:App._render_session_insights_panel]
   """
   from src import cost_tracker
   total_input = sum(e["input"] for e in self._token_history)
@@ -3182,7 +3240,7 @@ class AppController:
 
  def _flush_to_project(self) -> None:
   """
-   [C: src/gui_2.py:App._gui_func, src/gui_2.py:App._render_discussion_panel, src/gui_2.py:App._render_projects_panel, src/gui_2.py:App._show_menus]
+    [C: src/gui_2.py:App._render_discussion_entry_controls, src/gui_2.py:App._render_main_interface, src/gui_2.py:App._render_projects_panel, src/gui_2.py:App._show_menus, tests/test_view_presets.py:test_save_view_preset]
   """
   proj = self.project
   proj.setdefault("output", {})["output_dir"] = self.ui_output_dir
@@ -3222,7 +3280,7 @@ class AppController:
 
  def _flush_to_config(self) -> None:
   """
-   [C: src/gui_2.py:App._gui_func, src/gui_2.py:App._render_discussion_panel, src/gui_2.py:App._render_projects_panel, src/gui_2.py:App._render_theme_panel, src/gui_2.py:App._show_menus, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.test_app_controller_flush_saves_prompts]
+    [C: src/gui_2.py:App._render_discussion_entry_controls, src/gui_2.py:App._render_main_interface, src/gui_2.py:App._render_projects_panel, src/gui_2.py:App._render_theme_panel, src/gui_2.py:App._show_menus, tests/test_system_prompt_exposure.py:TestSystemPromptExposure.test_app_controller_flush_saves_prompts]
   """
   self.config["ai"] = {
    "provider": self.current_provider,
@@ -3265,9 +3323,10 @@ class AppController:
 
  def _do_generate(self) -> tuple[str, Path, list[dict[str, Any]], str, str]:
   """
-
-   Returns (full_md, output_path, file_items, stable_md, discussion_text).
-   [C: src/gui_2.py:App._show_menus, tests/test_tiered_aggregation.py:test_app_controller_do_generate_uses_persona_strategy]
+  
+  
+     Returns (full_md, output_path, file_items, stable_md, discussion_text).
+    [C: src/gui_2.py:App._show_menus, tests/test_context_composition_decoupled.py:test_do_generate_uses_context_files, tests/test_tiered_aggregation.py:test_app_controller_do_generate_uses_persona_strategy]
   """
   self._flush_to_project()
   self._flush_to_config()
@@ -3301,7 +3360,7 @@ class AppController:
 
  def _cb_plan_epic(self) -> None:
   """
-   [C: src/gui_2.py:App._render_mma_dashboard, tests/test_mma_orchestration_gui.py:test_cb_plan_epic_launches_thread]
+    [C: src/gui_2.py:App._render_mma_epic_planner, tests/test_mma_orchestration_gui.py:test_cb_plan_epic_launches_thread]
   """
   def _bg_task() -> None:
    try:
@@ -3347,7 +3406,7 @@ class AppController:
 
  def _cb_accept_tracks(self) -> None:
   """
-   [C: src/gui_2.py:App._render_track_proposal_modal]
+    [C: src/gui_2.py:App._render_track_proposal_modal]
   """
   self._show_track_proposal_modal = False
 
@@ -3388,7 +3447,7 @@ class AppController:
 
  def _cb_start_track(self, user_data: Any = None) -> None:
   """
-   [C: src/gui_2.py:App._render_track_proposal_modal]
+    [C: src/gui_2.py:App._render_track_proposal_modal]
   """
   if isinstance(user_data, str):
   # If track_id is provided directly
@@ -3507,7 +3566,7 @@ class AppController:
 
  def _cb_ticket_retry(self, ticket_id: str) -> None:
   """
-   [C: tests/test_mma_ticket_actions.py:test_cb_ticket_retry]
+    [C: tests/test_mma_ticket_actions.py:test_cb_ticket_retry]
   """
   for t in self.active_tickets:
    if t.get('id') == ticket_id:
@@ -3517,7 +3576,7 @@ class AppController:
 
  def _cb_ticket_skip(self, ticket_id: str) -> None:
   """
-   [C: tests/test_mma_ticket_actions.py:test_cb_ticket_skip]
+    [C: tests/test_mma_ticket_actions.py:test_cb_ticket_skip]
   """
   for t in self.active_tickets:
    if t.get('id') == ticket_id:
@@ -3539,9 +3598,10 @@ class AppController:
 
  def kill_worker(self, worker_id: str) -> None:
   """
-
-   Aborts a running worker.
-   [C: src/gui_2.py:App._cb_kill_ticket, tests/test_conductor_engine_abort.py:test_kill_worker_sets_abort_and_joins_thread]
+  
+  
+     Aborts a running worker.
+    [C: src/gui_2.py:App._cb_kill_ticket, tests/test_conductor_engine_abort.py:test_kill_worker_sets_abort_and_joins_thread]
   """
   engine = self.engines.get(self.active_track.id if self.active_track else None)
   if engine:
@@ -3563,9 +3623,10 @@ class AppController:
 
  def inject_context(self, data: dict) -> None:
   """
-
-   Programmatic context injection.
-   [C: tests/test_headless_simulation.py:test_mma_track_lifecycle_simulation]
+  
+  
+     Programmatic context injection.
+    [C: tests/test_headless_simulation.py:test_mma_track_lifecycle_simulation]
   """
   file_path = data.get("file_path")
   if file_path:
@@ -3613,7 +3674,7 @@ class AppController:
 
  def _cb_run_conductor_setup(self) -> None:
   """
-   [C: src/gui_2.py:App._render_mma_dashboard, tests/test_gui_phase3.py:test_conductor_setup_scan]
+    [C: src/gui_2.py:App._render_mma_conductor_setup, tests/test_gui_phase3.py:test_conductor_setup_scan]
   """
   base = paths.get_conductor_dir(project_path=self.active_project_root)
   if not base.exists():
@@ -3643,7 +3704,7 @@ class AppController:
 
  def _cb_create_track(self, name: str, desc: str, track_type: str) -> None:
   """
-   [C: src/gui_2.py:App._render_mma_dashboard, tests/test_gui_phase3.py:test_create_track]
+    [C: src/gui_2.py:App._render_mma_track_browser, tests/test_gui_phase3.py:test_create_track]
   """
   if not name: return
   date_suffix = datetime.now().strftime("%Y%m%d")
@@ -3671,7 +3732,7 @@ class AppController:
 
  def _push_mma_state_update(self) -> None:
   """
-   [C: src/gui_2.py:App._cb_block_ticket, src/gui_2.py:App._cb_unblock_ticket, src/gui_2.py:App._render_mma_dashboard, src/gui_2.py:App._render_task_dag_panel, src/gui_2.py:App._render_ticket_queue, src/gui_2.py:App._reorder_ticket, src/gui_2.py:App.bulk_block, src/gui_2.py:App.bulk_execute, src/gui_2.py:App.bulk_skip, tests/test_gui_phase4.py:test_push_mma_state_update]
+    [C: src/gui_2.py:App._cb_block_ticket, src/gui_2.py:App._cb_unblock_ticket, src/gui_2.py:App._render_mma_ticket_editor, src/gui_2.py:App._render_task_dag_panel, src/gui_2.py:App._render_ticket_queue, src/gui_2.py:App._reorder_ticket, src/gui_2.py:App.bulk_block, src/gui_2.py:App.bulk_execute, src/gui_2.py:App.bulk_skip, tests/test_gui_phase4.py:test_push_mma_state_update]
   """
   if not self.active_track:
    return
@@ -3695,9 +3756,10 @@ class AppController:
 
  def _load_active_tickets(self) -> None:
   """
-
-   Populates self.active_tickets based on the current execution mode.
-   [C: tests/test_gui_dag_beads.py:test_load_active_tickets_from_beads]
+  
+  
+     Populates self.active_tickets based on the current execution mode.
+    [C: tests/test_gui_dag_beads.py:test_load_active_tickets_from_beads]
   """
   if getattr(self, "ui_project_execution_mode", "native") == "beads":
    from src import beads_client
@@ -3718,4 +3780,4 @@ class AppController:
    if self.active_track:
     self.active_tickets = [asdict(t) if not isinstance(t, dict) else t for t in self.active_track.tickets]
    else:
-    self.active_tickets = []
+    self.active_tickets = []
\ No newline at end of file
diff --git a/src/beads_client.py b/src/beads_client.py
index 4b528b7..ca07283 100644
--- a/src/beads_client.py
+++ b/src/beads_client.py
@@ -13,7 +13,7 @@ class Bead:
 class BeadsClient:
  def __init__(self, working_dir: Path):
   """
-  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+    [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   self.working_dir = Path(working_dir)
   self.repo_dir = self.working_dir / ".beads_mock"
@@ -21,7 +21,8 @@ class BeadsClient:
 
  def init_repo(self) -> None:
   """
-  Initialize the mock repository.
+  
+    Initialize the mock repository.
     [C: tests/test_aggregate_beads.py:test_build_beads_compaction, tests/test_beads_client.py:test_beads_init_and_query, tests/test_gui_dag_beads.py:test_load_active_tickets_from_beads, tests/test_mcp_client_beads.py:test_bd_mcp_tools]
   """
   self.repo_dir.mkdir(parents=True, exist_ok=True)
@@ -30,14 +31,16 @@ class BeadsClient:
 
  def is_initialized(self) -> bool:
   """
-  Check if the repository is initialized.
+  
+    Check if the repository is initialized.
     [C: src/mcp_client.py:dispatch, tests/test_beads_client.py:test_beads_init_and_query]
   """
   return self.beads_file.exists()
 
  def create_bead(self, title: str, description: str) -> str:
   """
-  Create a new bead and return its ID.
+  
+    Create a new bead and return its ID.
     [C: src/mcp_client.py:dispatch, tests/test_aggregate_beads.py:test_build_beads_compaction, tests/test_beads_client.py:test_beads_init_and_query, tests/test_gui_dag_beads.py:test_load_active_tickets_from_beads]
   """
   beads = self._read_beads()
@@ -49,7 +52,8 @@ class BeadsClient:
 
  def update_bead(self, bead_id: str, status: str) -> bool:
   """
-  Update the status of an existing bead.
+  
+    Update the status of an existing bead.
     [C: src/mcp_client.py:dispatch, tests/test_aggregate_beads.py:test_build_beads_compaction, tests/test_beads_client.py:test_beads_init_and_query]
   """
   beads = self._read_beads()
@@ -62,7 +66,8 @@ class BeadsClient:
 
  def list_beads(self) -> List[Bead]:
   """
-  List all beads.
+  
+    List all beads.
     [C: src/gui_2.py:App._render_beads_tab, src/mcp_client.py:dispatch, tests/test_beads_client.py:test_beads_init_and_query]
   """
   return [Bead(**b) for b in self._read_beads()]
diff --git a/src/bg_shader.py b/src/bg_shader.py
index db21606..a693277 100644
--- a/src/bg_shader.py
+++ b/src/bg_shader.py
@@ -8,7 +8,7 @@ from imgui_bundle import imgui, nanovg as nvg, hello_imgui
 class BackgroundShader:
  def __init__(self):
   """
-  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+    [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   self.enabled = False
   self.start_time = time.time()
@@ -16,7 +16,7 @@ class BackgroundShader:
 
  def render(self, width: float, height: float):
   """
-  [C: src/gui_2.py:App._gui_func, src/gui_2.py:App._render_discussion_panel, src/gui_2.py:App._render_heavy_text, src/gui_2.py:App._render_markdown_test, src/gui_2.py:App._render_response_panel, src/gui_2.py:App._render_snapshot_tab, src/markdown_helper.py:MarkdownRenderer._render_code_block, src/markdown_helper.py:MarkdownRenderer.render, src/markdown_helper.py:render, tests/test_theme_nerv_alert.py:test_alert_pulsing_render_active, tests/test_theme_nerv_alert.py:test_alert_pulsing_render_inactive, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_alert_pulsing_render, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_disabled, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_render]
+    [C: src/gui_2.py:App._gui_func, src/gui_2.py:App._render_discussion_entry_read_mode, src/gui_2.py:App._render_heavy_text, src/gui_2.py:App._render_markdown_test, src/gui_2.py:App._render_prior_session_view, src/gui_2.py:App._render_response_panel, src/gui_2.py:App._render_snapshot_tab, src/gui_2.py:App._render_text_viewer_window, src/markdown_helper.py:MarkdownRenderer._render_code_block, src/markdown_helper.py:MarkdownRenderer.render, src/markdown_helper.py:render, src/theme_2.py:render_post_fx, tests/test_theme_nerv_alert.py:test_alert_pulsing_render_active, tests/test_theme_nerv_alert.py:test_alert_pulsing_render_inactive, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_alert_pulsing_render, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_disabled, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_render]
   """
   if not self.enabled or width <= 0 or height <= 0:
    return
@@ -66,9 +66,9 @@ _bg: Optional[BackgroundShader] = None
 
 def get_bg():
  """
- [C: src/gui_2.py:App._gui_func, src/gui_2.py:App._render_theme_panel]
+  [C: src/gui_2.py:App._gui_func, src/gui_2.py:App._render_theme_panel]
  """
  global _bg
  if _bg is None:
   _bg = BackgroundShader()
- return _bg
+ return _bg
\ No newline at end of file
diff --git a/src/conductor_tech_lead.py b/src/conductor_tech_lead.py
index bf199d4..d491567 100644
--- a/src/conductor_tech_lead.py
+++ b/src/conductor_tech_lead.py
@@ -42,9 +42,10 @@ from typing import Any
 def generate_tickets(track_brief: str, module_skeletons: str) -> list[dict[str, Any]]:
  """
  
-     Tier 2 (Tech Lead) call.
-     Breaks down a Track Brief and module skeletons into discrete Tier 3 Tickets.
-  [C: src/native_orchestrator.py:NativeOrchestrator.generate_tickets, tests/test_conductor_tech_lead.py:TestConductorTechLead.test_generate_tickets_retry_failure, tests/test_conductor_tech_lead.py:TestConductorTechLead.test_generate_tickets_retry_success, tests/test_conductor_tech_lead.py:TestConductorTechLead.test_generate_tickets_success, tests/test_orchestration_logic.py:test_generate_tickets]
+  
+      Tier 2 (Tech Lead) call.
+      Breaks down a Track Brief and module skeletons into discrete Tier 3 Tickets.
+  [C: tests/test_conductor_tech_lead.py:TestConductorTechLead.test_generate_tickets_retry_failure, tests/test_conductor_tech_lead.py:TestConductorTechLead.test_generate_tickets_retry_success, tests/test_conductor_tech_lead.py:TestConductorTechLead.test_generate_tickets_success, tests/test_orchestration_logic.py:test_generate_tickets]
  """
  # 1. Set Tier 2 Model (Tech Lead - Flash)
  # 2. Construct Prompt
@@ -98,8 +99,9 @@ from src.models import Ticket
 def topological_sort(tickets: list[dict[str, Any]]) -> list[dict[str, Any]]:
  """
  
-     Sorts a list of tickets based on their 'depends_on' field.
-     Raises ValueError if a circular dependency or missing internal dependency is detected.
+  
+      Sorts a list of tickets based on their 'depends_on' field.
+      Raises ValueError if a circular dependency or missing internal dependency is detected.
   [C: tests/test_conductor_tech_lead.py:TestTopologicalSort.test_topological_sort_complex, tests/test_conductor_tech_lead.py:TestTopologicalSort.test_topological_sort_cycle, tests/test_conductor_tech_lead.py:TestTopologicalSort.test_topological_sort_empty, tests/test_conductor_tech_lead.py:TestTopologicalSort.test_topological_sort_linear, tests/test_conductor_tech_lead.py:TestTopologicalSort.test_topological_sort_missing_dependency, tests/test_conductor_tech_lead.py:test_topological_sort_vlog, tests/test_dag_engine.py:test_topological_sort, tests/test_dag_engine.py:test_topological_sort_cycle, tests/test_orchestration_logic.py:test_topological_sort, tests/test_orchestration_logic.py:test_topological_sort_circular, tests/test_perf_dag.py:test_dag_edge_cases, tests/test_perf_dag.py:test_dag_performance]
  """
  # 1. Convert to Ticket objects for TrackDAG
@@ -121,4 +123,4 @@ if __name__ == "__main__":
  test_brief = "Implement a new feature."
  test_skeletons = "class NewFeature: pass"
  tickets = generate_tickets(test_brief, test_skeletons)
- print(json.dumps(tickets, indent=2))
+ print(json.dumps(tickets, indent=2))
\ No newline at end of file
diff --git a/src/cost_tracker.py b/src/cost_tracker.py
index 5b949ce..f98ea73 100644
--- a/src/cost_tracker.py
+++ b/src/cost_tracker.py
@@ -47,9 +47,10 @@ MODEL_PRICING = [
 def estimate_cost(model: str, input_tokens: int, output_tokens: int) -> float:
     """
     
-        Estimate the cost of a model call based on input and output tokens.
-        Returns the total cost in USD.
-        [C: src/gui_2.py:App._render_mma_dashboard, src/gui_2.py:App._render_token_budget_panel, tests/test_cost_tracker.py:test_estimate_cost]
+        
+            Estimate the cost of a model call based on input and output tokens.
+            Returns the total cost in USD.
+        [C: src/gui_2.py:App._render_mma_track_summary, src/gui_2.py:App._render_mma_usage_section, src/gui_2.py:App._render_token_budget_panel, tests/test_cost_tracker.py:test_estimate_cost]
     """
     if not model:
         return 0.0
@@ -60,4 +61,4 @@ def estimate_cost(model: str, input_tokens: int, output_tokens: int) -> float:
             output_cost = (output_tokens / 1_000_000) * rates["output_per_mtok"]
             return input_cost + output_cost
             
-    return 0.0
+    return 0.0
\ No newline at end of file
diff --git a/src/dag_engine.py b/src/dag_engine.py
index 63d1b56..e5f8481 100644
--- a/src/dag_engine.py
+++ b/src/dag_engine.py
@@ -33,16 +33,18 @@ from src.performance_monitor import get_monitor
 class TrackDAG:
  """
  
-     Manages a Directed Acyclic Graph of implementation tickets.
-     Provides methods for dependency resolution, cycle detection, and topological sorting.
+  
+      Manages a Directed Acyclic Graph of implementation tickets.
+      Provides methods for dependency resolution, cycle detection, and topological sorting.
  """
 
  def __init__(self, tickets: List[Ticket]) -> None:
   """
   
-          Initializes the TrackDAG with a list of Ticket objects.
-          Args:
-              tickets: A list of Ticket instances defining the graph nodes and edges.
+    
+            Initializes the TrackDAG with a list of Ticket objects.
+            Args:
+                tickets: A list of Ticket instances defining the graph nodes and edges.
     [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   self.tickets = tickets
@@ -51,8 +53,9 @@ class TrackDAG:
  def cascade_blocks(self) -> None:
   """
   
-          Transitively marks `todo` tickets as `blocked` if any dependency is `blocked`.
-          Propagates 'blocked' status from initially blocked nodes to their dependents.
+    
+            Transitively marks `todo` tickets as `blocked` if any dependency is `blocked`.
+            Propagates 'blocked' status from initially blocked nodes to their dependents.
     [C: tests/test_perf_dag.py:test_dag_performance]
   """
   with get_monitor().scope("dag_cascade_blocks"):
@@ -88,9 +91,10 @@ class TrackDAG:
  def get_ready_tasks(self) -> List[Ticket]:
   """
   
-          Returns a list of tickets that are in 'todo' status and whose dependencies are all 'completed'.
-          Returns:
-              A list of Ticket objects ready for execution.
+    
+            Returns a list of tickets that are in 'todo' status and whose dependencies are all 'completed'.
+            Returns:
+                A list of Ticket objects ready for execution.
     [C: src/models.py:Track.get_executable_tickets, tests/test_dag_engine.py:test_get_ready_tasks_branching, tests/test_dag_engine.py:test_get_ready_tasks_linear, tests/test_dag_engine.py:test_get_ready_tasks_multiple_deps, tests/test_orchestration_logic.py:test_track_executable_tickets]
   """
   ready = []
@@ -102,9 +106,10 @@ class TrackDAG:
  def has_cycle(self) -> bool:
   """
   
-          Performs an iterative Depth-First Search to detect cycles in the dependency graph.
-          Returns:
-              True if a cycle is detected, False otherwise.
+    
+            Performs an iterative Depth-First Search to detect cycles in the dependency graph.
+            Returns:
+                True if a cycle is detected, False otherwise.
     [C: src/gui_2.py:App._render_task_dag_panel, tests/test_dag_engine.py:test_has_cycle_complex_no_cycle, tests/test_dag_engine.py:test_has_cycle_direct_cycle, tests/test_dag_engine.py:test_has_cycle_indirect_cycle, tests/test_dag_engine.py:test_has_cycle_no_cycle, tests/test_perf_dag.py:test_dag_edge_cases, tests/test_perf_dag.py:test_dag_performance]
   """
   with get_monitor().scope("dag_has_cycle"):
@@ -135,12 +140,13 @@ class TrackDAG:
  def topological_sort(self) -> List[str]:
   """
   
-          Returns a list of ticket IDs in topological order (dependencies before dependents).
-          Uses Kahn's algorithm for efficient O(V+E) sorting and cycle detection.
-          Returns:
-              A list of ticket ID strings.
-          Raises:
-              ValueError: If a dependency cycle is detected.
+    
+            Returns a list of ticket IDs in topological order (dependencies before dependents).
+            Uses Kahn's algorithm for efficient O(V+E) sorting and cycle detection.
+            Returns:
+                A list of ticket ID strings.
+            Raises:
+                ValueError: If a dependency cycle is detected.
     [C: tests/test_conductor_tech_lead.py:TestTopologicalSort.test_topological_sort_complex, tests/test_conductor_tech_lead.py:TestTopologicalSort.test_topological_sort_cycle, tests/test_conductor_tech_lead.py:TestTopologicalSort.test_topological_sort_empty, tests/test_conductor_tech_lead.py:TestTopologicalSort.test_topological_sort_linear, tests/test_conductor_tech_lead.py:TestTopologicalSort.test_topological_sort_missing_dependency, tests/test_conductor_tech_lead.py:test_topological_sort_vlog, tests/test_dag_engine.py:test_topological_sort, tests/test_dag_engine.py:test_topological_sort_cycle, tests/test_orchestration_logic.py:test_topological_sort, tests/test_orchestration_logic.py:test_topological_sort_circular, tests/test_perf_dag.py:test_dag_edge_cases, tests/test_perf_dag.py:test_dag_performance]
   """
   with get_monitor().scope("dag_topological_sort"):
@@ -171,17 +177,19 @@ class TrackDAG:
 class ExecutionEngine:
  """
  
-     A state machine that governs the progression of tasks within a TrackDAG.
-     Handles automatic queueing and manual task approval.
+  
+      A state machine that governs the progression of tasks within a TrackDAG.
+      Handles automatic queueing and manual task approval.
  """
 
  def __init__(self, dag: TrackDAG, auto_queue: bool = False) -> None:
   """
   
-          Initializes the ExecutionEngine.
-          Args:
-              dag: The TrackDAG instance to manage.
-              auto_queue: If True, ready tasks will automatically move to 'in_progress'.
+    
+            Initializes the ExecutionEngine.
+            Args:
+                dag: The TrackDAG instance to manage.
+                auto_queue: If True, ready tasks will automatically move to 'in_progress'.
     [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   self.dag = dag
@@ -190,10 +198,11 @@ class ExecutionEngine:
  def tick(self) -> List[Ticket]:
   """
   
-          Evaluates the DAG and returns a list of tasks that are currently 'ready' for execution.
-          If auto_queue is enabled, tasks without 'step_mode' will be marked as 'in_progress'.
-          Returns:
-              A list of ready Ticket objects.
+    
+            Evaluates the DAG and returns a list of tasks that are currently 'ready' for execution.
+            If auto_queue is enabled, tasks without 'step_mode' will be marked as 'in_progress'.
+            Returns:
+                A list of ready Ticket objects.
     [C: src/multi_agent_conductor.py:ConductorEngine.run, tests/test_arch_boundary_phase3.py:TestArchBoundaryPhase3.test_cascade_blocks_multi_hop, tests/test_arch_boundary_phase3.py:TestArchBoundaryPhase3.test_cascade_blocks_simple, tests/test_arch_boundary_phase3.py:TestArchBoundaryPhase3.test_execution_engine_tick_cascades_blocks, tests/test_arch_boundary_phase3.py:TestArchBoundaryPhase3.test_in_progress_not_blocked, tests/test_arch_boundary_phase3.py:TestArchBoundaryPhase3.test_manual_unblock_restores_todo, tests/test_execution_engine.py:test_execution_engine_auto_queue, tests/test_execution_engine.py:test_execution_engine_basic_flow, tests/test_execution_engine.py:test_execution_engine_step_mode]
   """
   with get_monitor().scope("dag_tick"):
@@ -204,9 +213,10 @@ class ExecutionEngine:
  def approve_task(self, task_id: str) -> None:
   """
   
-          Manually transitions a task from 'todo' to 'in_progress' if its dependencies are met.
-          Args:
-              task_id: The ID of the task to approve.
+    
+            Manually transitions a task from 'todo' to 'in_progress' if its dependencies are met.
+            Args:
+                task_id: The ID of the task to approve.
     [C: src/multi_agent_conductor.py:ConductorEngine.approve_task, tests/test_execution_engine.py:test_execution_engine_approve_task, tests/test_execution_engine.py:test_execution_engine_step_mode]
   """
   ticket = self.dag.ticket_map.get(task_id)
@@ -216,10 +226,11 @@ class ExecutionEngine:
  def update_task_status(self, task_id: str, status: str) -> None:
   """
   
-          Force-updates the status of a specific task.
-          Args:
-              task_id: The ID of the task.
-              status: The new status string (e.g., 'todo', 'in_progress', 'completed', 'blocked').
+    
+            Force-updates the status of a specific task.
+            Args:
+                task_id: The ID of the task.
+                status: The new status string (e.g., 'todo', 'in_progress', 'completed', 'blocked').
     [C: src/multi_agent_conductor.py:ConductorEngine.update_task_status, tests/test_arch_boundary_phase3.py:TestArchBoundaryPhase3.test_manual_unblock_restores_todo, tests/test_execution_engine.py:test_execution_engine_auto_queue, tests/test_execution_engine.py:test_execution_engine_basic_flow, tests/test_execution_engine.py:test_execution_engine_status_persistence, tests/test_execution_engine.py:test_execution_engine_update_nonexistent_task]
   """
   ticket = self.dag.ticket_map.get(task_id)
diff --git a/src/diff_viewer.py b/src/diff_viewer.py
index b7b3072..b66e171 100644
--- a/src/diff_viewer.py
+++ b/src/diff_viewer.py
@@ -21,7 +21,7 @@ class DiffFile:
 
 def parse_hunk_header(line: str) -> Optional[tuple[int, int, int, int]]:
  """
- [C: tests/test_diff_viewer.py:test_parse_hunk_header]
+  [C: tests/test_diff_viewer.py:test_parse_hunk_header]
  """
  if not line.startswith("@@"):
   return None
@@ -45,7 +45,7 @@ def parse_hunk_header(line: str) -> Optional[tuple[int, int, int, int]]:
 
 def parse_diff(diff_text: str) -> List[DiffFile]:
  """
- [C: src/gui_2.py:App.request_patch_from_tier4, tests/test_diff_viewer.py:test_diff_line_classification, tests/test_diff_viewer.py:test_parse_diff_empty, tests/test_diff_viewer.py:test_parse_diff_none, tests/test_diff_viewer.py:test_parse_diff_with_context, tests/test_diff_viewer.py:test_parse_multiple_files, tests/test_diff_viewer.py:test_parse_simple_diff, tests/test_diff_viewer.py:test_render_diff_text_immediate]
+  [C: src/gui_2.py:App.request_patch_from_tier4, tests/test_diff_viewer.py:test_diff_line_classification, tests/test_diff_viewer.py:test_parse_diff_empty, tests/test_diff_viewer.py:test_parse_diff_none, tests/test_diff_viewer.py:test_parse_diff_with_context, tests/test_diff_viewer.py:test_parse_multiple_files, tests/test_diff_viewer.py:test_parse_simple_diff]
  """
  if not diff_text or not diff_text.strip():
   return []
@@ -113,7 +113,7 @@ def parse_diff(diff_text: str) -> List[DiffFile]:
 
 def get_line_color(line: str) -> Optional[str]:
  """
- [C: tests/test_diff_viewer.py:test_get_line_color]
+  [C: tests/test_diff_viewer.py:test_get_line_color]
  """
  if line.startswith("+"):
   return "green"
@@ -125,7 +125,7 @@ def get_line_color(line: str) -> Optional[str]:
 
 def apply_patch_to_file(patch_text: str, base_dir: str = ".") -> Tuple[bool, str]:
  """
- [C: src/gui_2.py:App._apply_pending_patch, tests/test_diff_viewer.py:test_apply_patch_simple, tests/test_diff_viewer.py:test_apply_patch_with_context]
+  [C: src/gui_2.py:App._apply_pending_patch, tests/test_diff_viewer.py:test_apply_patch_simple, tests/test_diff_viewer.py:test_apply_patch_with_context]
  """
  import difflib
  
@@ -171,4 +171,4 @@ def apply_patch_to_file(patch_text: str, base_dir: str = ".") -> Tuple[bool, str
   except Exception as e:
    return False, f"Error patching {file_path}: {e}"
  
- return True, "\n".join(results)
+ return True, "\n".join(results)
\ No newline at end of file
diff --git a/src/events.py b/src/events.py
index 6e0499e..c56125b 100644
--- a/src/events.py
+++ b/src/events.py
@@ -36,12 +36,14 @@ from pathlib import Path
 class EventEmitter:
  """
  
-  Simple event emitter for decoupled communication between modules.
+  
+   Simple event emitter for decoupled communication between modules.
  """
 
  def __init__(self) -> None:
   """
-  Initializes the EventEmitter with an empty listener map.
+  
+    Initializes the EventEmitter with an empty listener map.
     [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   self._listeners: Dict[str, List[Callable[..., Any]]] = {}
@@ -49,11 +51,12 @@ class EventEmitter:
  def on(self, event_name: str, callback: Callable[..., Any]) -> None:
   """
   
-    Registers a callback for a specific event.
     
-    Args:
-     event_name: The name of the event to listen for.
-     callback: The function to call when the event is emitted.
+      Registers a callback for a specific event.
+      
+      Args:
+       event_name: The name of the event to listen for.
+       callback: The function to call when the event is emitted.
     [C: tests/test_api_events.py:test_event_emission, tests/test_api_events.py:test_send_emits_events_proper, tests/test_api_events.py:test_send_emits_tool_events]
   """
   if event_name not in self._listeners:
@@ -63,12 +66,13 @@ class EventEmitter:
  def emit(self, event_name: str, *args: Any, **kwargs: Any) -> None:
   """
   
-    Emits an event, calling all registered callbacks.
     
-    Args:
-     event_name: The name of the event to emit.
-     *args: Positional arguments to pass to callbacks.
-     **kwargs: Keyword arguments to pass to callbacks.
+      Emits an event, calling all registered callbacks.
+      
+      Args:
+       event_name: The name of the event to emit.
+       *args: Positional arguments to pass to callbacks.
+       **kwargs: Keyword arguments to pass to callbacks.
     [C: tests/test_api_events.py:test_event_emission]
   """
   if event_name in self._listeners:
@@ -77,21 +81,24 @@ class EventEmitter:
 
  def clear(self) -> None:
   """
-  Clears all registered listeners.
-    [C: src/gui_2.py:App._gui_func, src/gui_2.py:App._render_comms_history_panel, src/gui_2.py:App._render_discussion_panel, src/gui_2.py:App._render_ticket_queue, src/gui_2.py:App._render_tool_calls_panel, src/gui_2.py:App._show_menus, src/history.py:HistoryManager.push, src/markdown_helper.py:MarkdownRenderer._render_code_block, src/markdown_helper.py:MarkdownRenderer.clear_cache, src/multi_agent_conductor.py:ConductorEngine.resume, src/multi_agent_conductor.py:WorkerPool.join_all, src/paths.py:reset_resolved, src/summary_cache.py:SummaryCache.clear, tests/conftest.py:reset_ai_client]
+  
+    Clears all registered listeners.
+    [C: src/gui_2.py:App._render_add_context_files_modal, src/gui_2.py:App._render_comms_history_panel, src/gui_2.py:App._render_context_batch_actions, src/gui_2.py:App._render_discussion_entry_controls, src/gui_2.py:App._render_main_interface, src/gui_2.py:App._render_ticket_queue, src/gui_2.py:App._render_tool_calls_panel, src/gui_2.py:App._show_menus, src/history.py:HistoryManager.push, src/markdown_helper.py:MarkdownRenderer._render_code_block, src/markdown_helper.py:MarkdownRenderer.clear_cache, src/multi_agent_conductor.py:ConductorEngine.resume, src/multi_agent_conductor.py:WorkerPool.join_all, src/paths.py:reset_resolved, src/summary_cache.py:SummaryCache.clear, tests/conftest.py:reset_ai_client]
   """
   self._listeners.clear()
 
 class AsyncEventQueue:
  """
  
-  Synchronous event queue for decoupled communication using queue.Queue.
-  (Named AsyncEventQueue for architectural consistency, but is synchronous)
+  
+   Synchronous event queue for decoupled communication using queue.Queue.
+   (Named AsyncEventQueue for architectural consistency, but is synchronous)
  """
 
  def __init__(self) -> None:
   """
-  Initializes the AsyncEventQueue with an internal queue.Queue.
+  
+    Initializes the AsyncEventQueue with an internal queue.Queue.
     [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   self._queue: queue.Queue[Tuple[str, Any]] = queue.Queue()
@@ -100,11 +107,12 @@ class AsyncEventQueue:
  def put(self, event_name: str, payload: Any = None) -> None:
   """
   
-    Puts an event into the queue.
     
-    Args:
-     event_name: The name of the event.
-     payload: Optional data associated with the event.
+      Puts an event into the queue.
+      
+      Args:
+       event_name: The name of the event.
+       payload: Optional data associated with the event.
     [C: src/gui_2.py:App._render_external_tools_panel, src/gui_2.py:App._render_log_management, src/gui_2.py:App._render_rag_panel, src/gui_2.py:App._render_token_budget_panel, src/gui_2.py:App._show_menus, src/multi_agent_conductor.py:ConductorEngine._push_state, src/multi_agent_conductor.py:_queue_put, tests/test_gui_events_v2.py:test_sync_event_queue, tests/test_sync_events.py:test_sync_event_queue_multiple, tests/test_sync_events.py:test_sync_event_queue_none_payload, tests/test_sync_events.py:test_sync_event_queue_put_get]
   """
   self._queue.put((event_name, payload))
@@ -121,21 +129,23 @@ class AsyncEventQueue:
  def get(self) -> Tuple[str, Any]:
   """
   
-    Gets an event from the queue.
     
-    Returns:
-     A tuple containing (event_name, payload).
-    [C: simulation/live_walkthrough.py:main, simulation/ping_pong.py:main, simulation/sim_context.py:ContextSimulation.run, simulation/sim_execution.py:ExecutionSimulation.run, simulation/sim_tools.py:ToolsSimulation.run, simulation/user_agent.py:UserSimAgent.generate_response, simulation/workflow_sim.py:WorkflowSimulator.run_discussion_turn_async, simulation/workflow_sim.py:WorkflowSimulator.wait_for_ai_response, src/external_editor.py:ExternalEditorLauncher.get_editor, src/external_editor.py:get_default_launcher, src/external_editor.py:resolve_project_editor_override, src/gemini_cli_adapter.py:GeminiCliAdapter.send, src/gui_2.py:App.__init__, src/gui_2.py:App._cb_block_ticket, src/gui_2.py:App._cb_unblock_ticket, src/gui_2.py:App._gui_func, src/gui_2.py:App._handle_history_logic, src/gui_2.py:App._render_cache_panel, src/gui_2.py:App._render_comms_history_panel, src/gui_2.py:App._render_context_composition_panel, src/gui_2.py:App._render_context_presets_panel, src/gui_2.py:App._render_diagnostics_panel, src/gui_2.py:App._render_discussion_panel, src/gui_2.py:App._render_external_editor_panel, src/gui_2.py:App._render_external_tools_panel, src/gui_2.py:App._render_history_window, src/gui_2.py:App._render_log_management, src/gui_2.py:App._render_mma_dashboard, src/gui_2.py:App._render_persona_editor_window, src/gui_2.py:App._render_persona_selector_panel, src/gui_2.py:App._render_projects_panel, src/gui_2.py:App._render_session_insights_panel, src/gui_2.py:App._render_shader_live_editor, src/gui_2.py:App._render_snapshot_tab, src/gui_2.py:App._render_synthesis_panel, src/gui_2.py:App._render_takes_panel, src/gui_2.py:App._render_task_dag_panel, src/gui_2.py:App._render_thinking_trace, src/gui_2.py:App._render_ticket_queue, src/gui_2.py:App._render_tier_stream_panel, src/gui_2.py:App._render_token_budget_panel, src/gui_2.py:App._render_tool_analytics_panel, src/gui_2.py:App._render_tool_calls_panel, src/gui_2.py:App._render_tool_preset_manager_content, src/gui_2.py:App._render_track_proposal_modal, src/gui_2.py:App._reorder_ticket, src/gui_2.py:App.bulk_block, src/gui_2.py:App.bulk_execute, src/gui_2.py:App.bulk_skip, src/gui_2.py:App.load_context_preset, src/gui_2.py:App.render_path_field, src/gui_2.py:App.run, src/gui_2.py:truncate_entries, src/history.py:UISnapshot.from_dict, src/log_registry.py:LogRegistry.get_old_non_whitelisted_sessions, src/log_registry.py:LogRegistry.is_session_whitelisted, src/log_registry.py:LogRegistry.update_auto_whitelist_status, src/log_registry.py:LogRegistry.update_session_metadata, src/markdown_helper.py:MarkdownRenderer._render_code_block, src/mcp_client.py:StdioMCPServer._send_request, src/mcp_client.py:StdioMCPServer.call_tool, src/mcp_client.py:_DDGParser.handle_starttag, src/mcp_client.py:configure, src/mcp_client.py:dispatch, src/mcp_client.py:get_tool_schemas, src/models.py:BiasProfile.from_dict, src/models.py:ExternalEditorConfig.from_dict, src/models.py:FileItem.from_dict, src/models.py:MCPConfiguration.from_dict, src/models.py:MCPServerConfig.from_dict, src/models.py:Metadata.from_dict, src/models.py:Persona.from_dict, src/models.py:Persona.max_output_tokens, src/models.py:Persona.model, src/models.py:Persona.provider, src/models.py:Persona.temperature, src/models.py:Persona.top_p, src/models.py:Preset.from_dict, src/models.py:RAGConfig.from_dict, src/models.py:TextEditorConfig.from_dict, src/models.py:Ticket.from_dict, src/models.py:Tool.from_dict, src/models.py:ToolPreset.from_dict, src/models.py:Track.from_dict, src/models.py:TrackState.from_dict, src/models.py:VectorStoreConfig.from_dict, src/models.py:WorkspaceProfile.from_dict, src/models.py:save_config, src/multi_agent_conductor.py:ConductorEngine.__init__, src/multi_agent_conductor.py:ConductorEngine.kill_worker, src/multi_agent_conductor.py:ConductorEngine.parse_json_tickets, src/multi_agent_conductor.py:ConductorEngine.run, src/multi_agent_conductor.py:clutch_callback, src/multi_agent_conductor.py:confirm_spawn, src/multi_agent_conductor.py:run_worker_lifecycle, src/multi_agent_conductor.py:worker_comms_callback, src/native_orchestrator.py:NativeOrchestrator.execute_ticket, src/orchestrator_pm.py:generate_tracks, src/orchestrator_pm.py:get_track_history_summary, src/orchestrator_pm.py:module, src/paths.py:_get_project_conductor_dir_from_toml, src/paths.py:get_config_path, src/paths.py:get_global_personas_path, src/paths.py:get_global_presets_path, src/paths.py:get_global_tool_presets_path, src/paths.py:get_global_workspace_profiles_path, src/performance_monitor.py:PerformanceMonitor._get_avg, src/performance_monitor.py:PerformanceMonitor.end_component, src/performance_monitor.py:PerformanceMonitor.get_metrics, src/personas.py:PersonaManager.get_persona_scope, src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.delete_preset, src/presets.py:PresetManager.get_preset_scope, src/presets.py:PresetManager.load_all, src/project_manager.py:branch_discussion, src/project_manager.py:entry_to_str, src/project_manager.py:flat_config, src/project_manager.py:get_all_tracks, src/project_manager.py:load_track_history, src/project_manager.py:migrate_from_legacy_config, src/project_manager.py:promote_take, src/rag_engine.py:RAGEngine.get_all_indexed_paths, src/rag_engine.py:RAGEngine.index_file, src/shell_runner.py:_build_subprocess_env, src/shell_runner.py:_load_env_config, src/summarize.py:build_summary_markdown, src/summarize.py:summarise_file, src/summarize.py:summarise_items, src/summary_cache.py:SummaryCache.get_summary, src/synthesis_formatter.py:format_takes_diff, src/theme.py:apply, src/theme.py:get_palette_colours, src/theme.py:get_shader_config, src/theme.py:get_window_frame_config, src/theme.py:load_from_config, src/theme_2.py:load_from_config, src/tool_bias.py:ToolBiasEngine.apply_semantic_nudges, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/conftest.py:live_gui, tests/mock_gemini_cli.py:main, tests/test_ai_settings_layout.py:test_change_provider_via_hook, tests/test_ai_settings_layout.py:test_set_params_via_custom_callback, tests/test_async_tools.py:mocked_async_dispatch, tests/test_auto_switch_sim.py:test_auto_switch_sim, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_allow_decision, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_deny_decision, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_unreachable_hook_server, tests/test_cli_tool_bridge_mapping.py:TestCliToolBridgeMapping.test_mapping_from_api_format, tests/test_conductor_api_hook_integration.py:simulate_conductor_phase_completion, tests/test_conductor_engine_v2.py:mock_open_side_effect, tests/test_conductor_engine_v2.py:mock_send_side_effect, tests/test_external_editor_gui.py:test_button_click_is_received, tests/test_external_editor_gui.py:test_patch_modal_shows_with_configured_editor, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_send_captures_usage_metadata, tests/test_gui2_performance.py:test_performance_benchmarking, tests/test_gui_context_presets.py:test_gui_context_preset_save_load, tests/test_gui_events_v2.py:test_sync_event_queue, tests/test_gui_performance_requirements.py:test_idle_performance_requirements, tests/test_gui_phase4.py:test_delete_ticket_logic, tests/test_gui_stress_performance.py:test_comms_volume_stress_performance, tests/test_gui_text_viewer.py:test_text_viewer_state_update, tests/test_gui_updates.py:test_gui_updates_on_event, tests/test_headless_service.py:TestHeadlessAPI.test_endpoint_no_api_key_configured, tests/test_headless_service.py:TestHeadlessAPI.test_get_context_endpoint, tests/test_headless_service.py:TestHeadlessAPI.test_health_endpoint, tests/test_headless_service.py:TestHeadlessAPI.test_list_sessions_endpoint, tests/test_headless_service.py:TestHeadlessAPI.test_pending_actions_endpoint, tests/test_headless_service.py:TestHeadlessAPI.test_status_endpoint_authorized, tests/test_headless_service.py:TestHeadlessAPI.test_status_endpoint_unauthorized, tests/test_live_gui_integration_v2.py:test_api_gui_state_live, tests/test_live_gui_integration_v2.py:test_user_request_error_handling, tests/test_live_gui_integration_v2.py:test_user_request_integration_flow, tests/test_live_workflow.py:test_full_live_workflow, tests/test_live_workflow.py:wait_for_value, tests/test_log_registry.py:TestLogRegistry.test_register_session, tests/test_log_registry.py:TestLogRegistry.test_update_session_metadata, tests/test_mma_agent_focus_phase3.py:test_comms_log_filter_not_applied_for_prior_session, tests/test_mma_agent_focus_phase3.py:test_comms_log_filter_tier3_only, tests/test_mma_agent_focus_phase3.py:test_tool_log_filter_all, tests/test_mma_agent_focus_phase3.py:test_tool_log_filter_excludes_none_tier, tests/test_mma_agent_focus_phase3.py:test_tool_log_filter_tier3_only, tests/test_mma_approval_indicators.py:_make_app, tests/test_mma_concurrent_tracks_sim.py:test_mma_concurrent_tracks_execution, tests/test_mma_concurrent_tracks_stress_sim.py:_poll_mma_workers, tests/test_mma_concurrent_tracks_stress_sim.py:test_mma_concurrent_tracks_stress, tests/test_mma_dashboard_streams.py:_make_app, tests/test_mma_orchestration_gui.py:test_handle_ai_response_with_stream_id, tests/test_mma_step_mode_sim.py:_poll_mma_status, tests/test_mma_step_mode_sim.py:test_mma_step_mode_approval_flow, tests/test_mock_gemini_cli.py:get_message_content, tests/test_patch_modal_gui.py:test_patch_apply_modal_workflow, tests/test_patch_modal_gui.py:test_patch_modal_appears_on_trigger, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_phase6_engine.py:test_worker_streaming_intermediate, tests/test_preset_windows_layout.py:test_api_hook_under_load, tests/test_preset_windows_layout.py:test_preset_windows_opening, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim, tests/test_saved_presets_sim.py:test_preset_switching, tests/test_selectable_ui.py:test_selectable_label_stability, tests/test_sim_ai_settings.py:side_effect, tests/test_sim_ai_settings.py:test_ai_settings_simulation_run, tests/test_sim_context.py:test_context_simulation_run, tests/test_sim_execution.py:side_effect, tests/test_spawn_interception_v2.py:test_confirm_spawn_pushed_to_queue, tests/test_status_encapsulation.py:test_status_properties, tests/test_sync_events.py:test_sync_event_queue_multiple, tests/test_sync_events.py:test_sync_event_queue_none_payload, tests/test_sync_events.py:test_sync_event_queue_put_get, tests/test_task_dag_popout_sim.py:test_task_dag_popout, tests/test_tier4_interceptor.py:test_ai_client_passes_qa_callback, tests/test_tiered_aggregation.py:test_app_controller_do_generate_uses_persona_strategy, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_token_usage.py:test_token_usage_tracking, tests/test_tool_management_layout.py:test_tool_management_state_updates, tests/test_tool_preset_env.py:test_tool_preset_env_loading, tests/test_tool_preset_env.py:test_tool_preset_env_no_var, tests/test_tool_presets_sim.py:test_tool_preset_switching, tests/test_ui_cache_controls_sim.py:test_ui_cache_controls, tests/test_ui_summary_only_removal.py:test_project_without_summary_only_loads, tests/test_usage_analytics_popout_sim.py:test_usage_analytics_popout, tests/test_visual_orchestration.py:test_mma_epic_lifecycle, tests/test_visual_sim_gui_ux.py:test_gui_track_creation, tests/test_visual_sim_gui_ux.py:test_gui_ux_event_routing, tests/test_visual_sim_mma_v2.py:_drain_approvals, tests/test_visual_sim_mma_v2.py:_mma_active, tests/test_visual_sim_mma_v2.py:_poll, tests/test_visual_sim_mma_v2.py:_tier3_in_streams, tests/test_visual_sim_mma_v2.py:_tier3_usage_nonzero, tests/test_visual_sim_mma_v2.py:_track_loaded, tests/test_visual_sim_mma_v2.py:test_mma_complete_lifecycle]
+      Gets an event from the queue.
+      
+      Returns:
+       A tuple containing (event_name, payload).
+    [C: simulation/live_walkthrough.py:main, simulation/ping_pong.py:main, simulation/sim_context.py:ContextSimulation.run, simulation/sim_execution.py:ExecutionSimulation.run, simulation/sim_tools.py:ToolsSimulation.run, simulation/user_agent.py:UserSimAgent.generate_response, simulation/workflow_sim.py:WorkflowSimulator.run_discussion_turn_async, simulation/workflow_sim.py:WorkflowSimulator.wait_for_ai_response, src/external_editor.py:ExternalEditorLauncher.get_editor, src/external_editor.py:get_default_launcher, src/gemini_cli_adapter.py:GeminiCliAdapter.send, src/gui_2.py:App.__init__, src/gui_2.py:App._cb_block_ticket, src/gui_2.py:App._cb_unblock_ticket, src/gui_2.py:App._handle_history_logic, src/gui_2.py:App._populate_auto_slices, src/gui_2.py:App._render_ast_inspector_modal, src/gui_2.py:App._render_cache_panel, src/gui_2.py:App._render_comms_history_panel, src/gui_2.py:App._render_context_files_table, src/gui_2.py:App._render_context_presets, src/gui_2.py:App._render_context_presets_panel, src/gui_2.py:App._render_diagnostics_panel, src/gui_2.py:App._render_discussion_entries, src/gui_2.py:App._render_discussion_entry, src/gui_2.py:App._render_discussion_metadata, src/gui_2.py:App._render_discussion_selector, src/gui_2.py:App._render_external_editor_panel, src/gui_2.py:App._render_external_tools_panel, src/gui_2.py:App._render_history_window, src/gui_2.py:App._render_log_management, src/gui_2.py:App._render_main_interface, src/gui_2.py:App._render_mma_modals, src/gui_2.py:App._render_mma_ticket_editor, src/gui_2.py:App._render_mma_track_browser, src/gui_2.py:App._render_mma_track_summary, src/gui_2.py:App._render_mma_usage_section, src/gui_2.py:App._render_operations_hub, src/gui_2.py:App._render_path_field, src/gui_2.py:App._render_persona_editor_window, src/gui_2.py:App._render_persona_selector_panel, src/gui_2.py:App._render_prior_session_view, src/gui_2.py:App._render_projects_panel, src/gui_2.py:App._render_session_insights_panel, src/gui_2.py:App._render_shader_live_editor, src/gui_2.py:App._render_snapshot_tab, src/gui_2.py:App._render_synthesis_panel, src/gui_2.py:App._render_takes_panel, src/gui_2.py:App._render_task_dag_panel, src/gui_2.py:App._render_text_viewer_window, src/gui_2.py:App._render_theme_panel, src/gui_2.py:App._render_thinking_trace, src/gui_2.py:App._render_ticket_queue, src/gui_2.py:App._render_tier_stream_panel, src/gui_2.py:App._render_token_budget_panel, src/gui_2.py:App._render_tool_analytics_panel, src/gui_2.py:App._render_tool_calls_panel, src/gui_2.py:App._render_tool_preset_manager_content, src/gui_2.py:App._render_track_proposal_modal, src/gui_2.py:App._render_window_if_open, src/gui_2.py:App._reorder_ticket, src/gui_2.py:App._update_context_file_stats, src/gui_2.py:App.bulk_block, src/gui_2.py:App.bulk_execute, src/gui_2.py:App.bulk_skip, src/gui_2.py:App.iterate_history, src/gui_2.py:App.load_context_preset, src/gui_2.py:App.run, src/gui_2.py:truncate_entries, src/history.py:UISnapshot.from_dict, src/log_registry.py:LogRegistry.get_old_non_whitelisted_sessions, src/log_registry.py:LogRegistry.is_session_whitelisted, src/log_registry.py:LogRegistry.update_auto_whitelist_status, src/log_registry.py:LogRegistry.update_session_metadata, src/markdown_helper.py:MarkdownRenderer._render_code_block, src/mcp_client.py:StdioMCPServer._send_request, src/mcp_client.py:StdioMCPServer.call_tool, src/mcp_client.py:_DDGParser.handle_starttag, src/mcp_client.py:configure, src/mcp_client.py:dispatch, src/mcp_client.py:get_tool_schemas, src/models.py:BiasProfile.from_dict, src/models.py:ContextPreset.from_dict, src/models.py:ExternalEditorConfig.from_dict, src/models.py:FileItem.from_dict, src/models.py:FileViewPreset.from_dict, src/models.py:MCPConfiguration.from_dict, src/models.py:MCPServerConfig.from_dict, src/models.py:Metadata.from_dict, src/models.py:NamedViewPreset.from_dict, src/models.py:Persona.from_dict, src/models.py:Persona.max_output_tokens, src/models.py:Persona.model, src/models.py:Persona.provider, src/models.py:Persona.temperature, src/models.py:Persona.top_p, src/models.py:Preset.from_dict, src/models.py:RAGConfig.from_dict, src/models.py:TextEditorConfig.from_dict, src/models.py:Ticket.from_dict, src/models.py:Tool.from_dict, src/models.py:ToolPreset.from_dict, src/models.py:Track.from_dict, src/models.py:TrackState.from_dict, src/models.py:VectorStoreConfig.from_dict, src/models.py:WorkspaceProfile.from_dict, src/models.py:save_config, src/multi_agent_conductor.py:ConductorEngine.__init__, src/multi_agent_conductor.py:ConductorEngine.kill_worker, src/multi_agent_conductor.py:ConductorEngine.parse_json_tickets, src/multi_agent_conductor.py:ConductorEngine.run, src/multi_agent_conductor.py:clutch_callback, src/multi_agent_conductor.py:confirm_spawn, src/multi_agent_conductor.py:run_worker_lifecycle, src/multi_agent_conductor.py:worker_comms_callback, src/orchestrator_pm.py:generate_tracks, src/orchestrator_pm.py:get_track_history_summary, src/orchestrator_pm.py:module, src/paths.py:_get_project_conductor_dir_from_toml, src/paths.py:get_config_path, src/paths.py:get_global_personas_path, src/paths.py:get_global_presets_path, src/paths.py:get_global_tool_presets_path, src/paths.py:get_global_workspace_profiles_path, src/performance_monitor.py:PerformanceMonitor._get_avg, src/performance_monitor.py:PerformanceMonitor.end_component, src/performance_monitor.py:PerformanceMonitor.get_metrics, src/personas.py:PersonaManager.get_persona_scope, src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.delete_preset, src/presets.py:PresetManager.get_preset_scope, src/presets.py:PresetManager.load_all, src/project_manager.py:branch_discussion, src/project_manager.py:entry_to_str, src/project_manager.py:flat_config, src/project_manager.py:get_all_tracks, src/project_manager.py:load_track_history, src/project_manager.py:migrate_from_legacy_config, src/project_manager.py:promote_take, src/rag_engine.py:RAGEngine.get_all_indexed_paths, src/rag_engine.py:RAGEngine.index_file, src/shell_runner.py:_build_subprocess_env, src/shell_runner.py:_load_env_config, src/summarize.py:build_summary_markdown, src/summarize.py:summarise_file, src/summarize.py:summarise_items, src/summary_cache.py:SummaryCache.get_summary, src/synthesis_formatter.py:format_takes_diff, src/theme_2.py:load_from_config, src/tool_bias.py:ToolBiasEngine.apply_semantic_nudges, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/conftest.py:live_gui, tests/mock_gemini_cli.py:main, tests/test_ai_server.py:test_server_outputs_ready_marker, tests/test_ai_settings_layout.py:test_change_provider_via_hook, tests/test_ai_settings_layout.py:test_set_params_via_custom_callback, tests/test_async_tools.py:mocked_async_dispatch, tests/test_auto_switch_sim.py:test_auto_switch_sim, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_allow_decision, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_deny_decision, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_unreachable_hook_server, tests/test_cli_tool_bridge_mapping.py:TestCliToolBridgeMapping.test_mapping_from_api_format, tests/test_conductor_api_hook_integration.py:simulate_conductor_phase_completion, tests/test_conductor_engine_v2.py:mock_open_side_effect, tests/test_conductor_engine_v2.py:mock_send_side_effect, tests/test_external_editor_gui.py:test_button_click_is_received, tests/test_external_editor_gui.py:test_patch_modal_shows_with_configured_editor, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_send_captures_usage_metadata, tests/test_gui2_performance.py:test_performance_benchmarking, tests/test_gui_context_presets.py:test_gui_context_preset_save_load, tests/test_gui_events_v2.py:test_sync_event_queue, tests/test_gui_performance_requirements.py:test_idle_performance_requirements, tests/test_gui_phase4.py:test_delete_ticket_logic, tests/test_gui_stress_performance.py:test_comms_volume_stress_performance, tests/test_gui_text_viewer.py:test_text_viewer_state_update, tests/test_gui_updates.py:test_gui_updates_on_event, tests/test_headless_service.py:TestHeadlessAPI.test_endpoint_no_api_key_configured, tests/test_headless_service.py:TestHeadlessAPI.test_get_context_endpoint, tests/test_headless_service.py:TestHeadlessAPI.test_health_endpoint, tests/test_headless_service.py:TestHeadlessAPI.test_list_sessions_endpoint, tests/test_headless_service.py:TestHeadlessAPI.test_pending_actions_endpoint, tests/test_headless_service.py:TestHeadlessAPI.test_status_endpoint_authorized, tests/test_headless_service.py:TestHeadlessAPI.test_status_endpoint_unauthorized, tests/test_live_gui_integration_v2.py:test_api_gui_state_live, tests/test_live_gui_integration_v2.py:test_user_request_error_handling, tests/test_live_gui_integration_v2.py:test_user_request_integration_flow, tests/test_live_workflow.py:test_full_live_workflow, tests/test_live_workflow.py:wait_for_value, tests/test_log_registry.py:TestLogRegistry.test_register_session, tests/test_log_registry.py:TestLogRegistry.test_update_session_metadata, tests/test_mma_agent_focus_phase3.py:test_comms_log_filter_not_applied_for_prior_session, tests/test_mma_agent_focus_phase3.py:test_comms_log_filter_tier3_only, tests/test_mma_agent_focus_phase3.py:test_tool_log_filter_all, tests/test_mma_agent_focus_phase3.py:test_tool_log_filter_excludes_none_tier, tests/test_mma_agent_focus_phase3.py:test_tool_log_filter_tier3_only, tests/test_mma_approval_indicators.py:_make_app, tests/test_mma_concurrent_tracks_sim.py:test_mma_concurrent_tracks_execution, tests/test_mma_concurrent_tracks_stress_sim.py:_poll_mma_workers, tests/test_mma_concurrent_tracks_stress_sim.py:test_mma_concurrent_tracks_stress, tests/test_mma_dashboard_streams.py:_make_app, tests/test_mma_orchestration_gui.py:test_handle_ai_response_with_stream_id, tests/test_mma_step_mode_sim.py:_poll_mma_status, tests/test_mma_step_mode_sim.py:test_mma_step_mode_approval_flow, tests/test_mock_gemini_cli.py:get_message_content, tests/test_patch_modal_gui.py:test_patch_apply_modal_workflow, tests/test_patch_modal_gui.py:test_patch_modal_appears_on_trigger, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_phase6_engine.py:test_worker_streaming_intermediate, tests/test_phase6_simulation.py:test_ast_inspector_modal_opens, tests/test_phase6_simulation.py:test_batch_operations_shift_click, tests/test_phase6_simulation.py:test_slice_editor_add_remove, tests/test_preset_windows_layout.py:test_api_hook_under_load, tests/test_preset_windows_layout.py:test_preset_windows_opening, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim, tests/test_saved_presets_sim.py:test_preset_manager_modal, tests/test_saved_presets_sim.py:test_preset_switching, tests/test_selectable_ui.py:test_selectable_label_stability, tests/test_sim_ai_settings.py:side_effect, tests/test_sim_ai_settings.py:test_ai_settings_simulation_run, tests/test_sim_context.py:test_context_simulation_run, tests/test_sim_execution.py:side_effect, tests/test_spawn_interception_v2.py:test_confirm_spawn_pushed_to_queue, tests/test_status_encapsulation.py:test_status_properties, tests/test_sync_events.py:test_sync_event_queue_multiple, tests/test_sync_events.py:test_sync_event_queue_none_payload, tests/test_sync_events.py:test_sync_event_queue_put_get, tests/test_task_dag_popout_sim.py:test_task_dag_popout, tests/test_tier4_interceptor.py:test_ai_client_passes_qa_callback, tests/test_tiered_aggregation.py:test_app_controller_do_generate_uses_persona_strategy, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_token_usage.py:test_token_usage_tracking, tests/test_tool_management_layout.py:test_tool_management_state_updates, tests/test_tool_preset_env.py:test_tool_preset_env_loading, tests/test_tool_preset_env.py:test_tool_preset_env_no_var, tests/test_tool_presets_sim.py:test_tool_preset_switching, tests/test_ui_cache_controls_sim.py:test_ui_cache_controls, tests/test_ui_summary_only_removal.py:test_project_without_summary_only_loads, tests/test_usage_analytics_popout_sim.py:test_usage_analytics_popout, tests/test_visual_mma.py:test_visual_mma_components, tests/test_visual_orchestration.py:test_mma_epic_lifecycle, tests/test_visual_sim_gui_ux.py:test_gui_ux_event_routing, tests/test_visual_sim_mma_v2.py:_drain_approvals, tests/test_visual_sim_mma_v2.py:_mma_active, tests/test_visual_sim_mma_v2.py:_poll, tests/test_visual_sim_mma_v2.py:_tier3_in_streams, tests/test_visual_sim_mma_v2.py:_tier3_usage_nonzero, tests/test_visual_sim_mma_v2.py:_track_loaded, tests/test_visual_sim_mma_v2.py:test_mma_complete_lifecycle]
   """
   return self._queue.get()
 
  def empty(self) -> bool:
   """
   
-    Checks if the queue is empty.
     
-    Returns:
-     True if the queue is empty, False otherwise.
+      Checks if the queue is empty.
+      
+      Returns:
+       True if the queue is empty, False otherwise.
     [C: tests/test_gui_updates.py:test_gui_updates_on_event, tests/test_live_gui_integration_v2.py:test_user_request_error_handling, tests/test_live_gui_integration_v2.py:test_user_request_integration_flow]
   """
   return self._queue.empty()
@@ -146,8 +156,9 @@ class AsyncEventQueue:
 
  def join(self) -> None:
   """
-  Blocks until all items in the queue have been gotten and processed.
-    [C: simulation/live_walkthrough.py:main, simulation/ping_pong.py:module, simulation/sim_base.py:module, src/file_cache.py:ASTParser.get_code_outline, src/gemini_cli_adapter.py:GeminiCliAdapter.count_tokens, src/gemini_cli_adapter.py:GeminiCliAdapter.send, src/gui_2.py:App._render_beads_tab, src/gui_2.py:App._render_discussion_panel, src/gui_2.py:App._render_mma_dashboard, src/log_pruner.py:LogPruner.prune, src/log_registry.py:LogRegistry.update_auto_whitelist_status, src/markdown_helper.py:MarkdownRenderer._render_code_block, src/mcp_client.py:StdioMCPServer.call_tool, src/mcp_client.py:_resolve_and_check, src/mcp_client.py:derive_code_path, src/mcp_client.py:dispatch, src/mcp_client.py:fetch_url, src/mcp_client.py:get_file_slice, src/mcp_client.py:get_tree, src/mcp_client.py:list_directory, src/mcp_client.py:py_find_usages, src/mcp_client.py:py_get_class_summary, src/mcp_client.py:py_get_definition, src/mcp_client.py:py_get_hierarchy, src/mcp_client.py:py_get_imports, src/mcp_client.py:py_get_signature, src/mcp_client.py:py_get_symbol_info, src/mcp_client.py:py_get_var_declaration, src/mcp_client.py:search_files, src/mcp_client.py:set_file_slice, src/mcp_client.py:web_search, src/models.py:parse_history_entries, src/multi_agent_conductor.py:ConductorEngine.kill_worker, src/multi_agent_conductor.py:WorkerPool.join_all, src/orchestrator_pm.py:generate_tracks, src/orchestrator_pm.py:get_track_history_summary, src/outline_tool.py:CodeOutliner.outline, src/performance_monitor.py:PerformanceMonitor.stop, src/project_manager.py:str_to_entry, src/rag_engine.py:RAGEngine._init_vector_store, src/rag_engine.py:RAGEngine.index_file, src/session_logger.py:open_session, src/shell_runner.py:_build_subprocess_env, src/shell_runner.py:run_powershell, src/summarize.py:_summarise_generic, src/summarize.py:_summarise_markdown, src/summarize.py:_summarise_python, src/summarize.py:_summarise_toml, src/summarize.py:build_summary_markdown, src/synthesis_formatter.py:format_takes_diff, src/tool_bias.py:ToolBiasEngine.generate_tooling_strategy, tests/conftest.py:live_gui, tests/conftest.py:module, tests/mock_gemini_cli.py:main, tests/smoke_status_hook.py:module, tests/test_agent_capabilities.py:module, tests/test_agent_tools_wiring.py:module, tests/test_ai_client_concurrency.py:test_ai_client_tier_isolation, tests/test_api_hook_client.py:module, tests/test_api_hook_extensions.py:module, tests/test_arch_boundary_phase1.py:module, tests/test_arch_boundary_phase2.py:module, tests/test_arch_boundary_phase3.py:module, tests/test_auto_switch_sim.py:module, tests/test_cli_tool_bridge.py:module, tests/test_cli_tool_bridge_mapping.py:module, tests/test_context_pruner.py:test_performance_large_file, tests/test_context_pruner.py:test_token_reduction_logging, tests/test_deepseek_infra.py:module, tests/test_extended_sims.py:module, tests/test_external_editor_gui.py:module, tests/test_gemini_metrics.py:module, tests/test_gui2_parity.py:module, tests/test_gui2_performance.py:module, tests/test_gui_diagnostics.py:module, tests/test_gui_performance_requirements.py:module, tests/test_gui_stress_performance.py:module, tests/test_gui_updates.py:module, tests/test_headless_service.py:module, tests/test_history_management.py:module, tests/test_hooks.py:module, tests/test_layout_reorganization.py:module, tests/test_live_workflow.py:module, tests/test_log_pruning_heuristic.py:TestLogPruningHeuristic.test_prune_handles_relative_paths_starting_with_logs, tests/test_log_pruning_heuristic.py:TestLogPruningHeuristic.test_prune_removes_empty_sessions_regardless_of_age, tests/test_log_pruning_heuristic.py:TestLogPruningHeuristic.test_prune_removes_sessions_without_metadata_regardless_of_age, tests/test_log_registry.py:TestLogRegistry.setUp, tests/test_mcp_perf_tool.py:module, tests/test_mcp_ts_integration.py:module, tests/test_mma_approval_indicators.py:_collect_text_colored_args, tests/test_mma_concurrent_tracks_sim.py:module, tests/test_mma_concurrent_tracks_stress_sim.py:module, tests/test_mma_dashboard_streams.py:TestMMADashboardStreams.test_tier3_renders_worker_subheaders, tests/test_mma_step_mode_sim.py:module, tests/test_patch_modal_gui.py:module, tests/test_performance_monitor.py:module, tests/test_rag_integration.py:mock_project, tests/test_rag_integration.py:test_rag_integration, tests/test_rag_phase4_final_verify.py:module, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:module, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim, tests/test_rag_visual_sim.py:module, tests/test_selectable_ui.py:module, tests/test_sim_ai_settings.py:module, tests/test_sim_base.py:module, tests/test_sim_context.py:module, tests/test_sim_execution.py:module, tests/test_sim_tools.py:module, tests/test_skeleton_injection.py:test_update_inject_preview_truncation, tests/test_spawn_interception_v2.py:test_confirm_spawn_pushed_to_queue, tests/test_system_prompt_exposure.py:module, tests/test_system_prompt_sim.py:module, tests/test_token_usage.py:module, tests/test_tool_management_layout.py:module, tests/test_ts_c_tools.py:module, tests/test_ts_cpp_tools.py:module, tests/test_ui_cache_controls_sim.py:module, tests/test_undo_redo_sim.py:module, tests/test_user_agent.py:module, tests/test_visual_orchestration.py:module, tests/test_visual_sim_gui_ux.py:module, tests/test_visual_sim_gui_ux.py:test_gui_track_creation, tests/test_visual_sim_mma_v2.py:module, tests/test_workflow_sim.py:module, tests/test_workspace_profiles_sim.py:module]
+  
+    Blocks until all items in the queue have been gotten and processed.
+    [C: simulation/live_walkthrough.py:main, simulation/ping_pong.py:module, simulation/sim_base.py:module, src/file_cache.py:ASTParser.get_code_outline, src/fuzzy_anchor.py:FuzzyAnchor.create_slice, src/fuzzy_anchor.py:FuzzyAnchor.resolve_slice, src/gemini_cli_adapter.py:GeminiCliAdapter.count_tokens, src/gemini_cli_adapter.py:GeminiCliAdapter.send, src/gui_2.py:App._render_ast_inspector_modal, src/gui_2.py:App._render_beads_tab, src/gui_2.py:App._render_discussion_entry, src/gui_2.py:App._render_mma_ticket_editor, src/log_pruner.py:LogPruner.prune, src/log_registry.py:LogRegistry.update_auto_whitelist_status, src/markdown_helper.py:MarkdownRenderer._render_code_block, src/mcp_client.py:StdioMCPServer.call_tool, src/mcp_client.py:_resolve_and_check, src/mcp_client.py:derive_code_path, src/mcp_client.py:dispatch, src/mcp_client.py:fetch_url, src/mcp_client.py:get_file_slice, src/mcp_client.py:get_tree, src/mcp_client.py:list_directory, src/mcp_client.py:py_find_usages, src/mcp_client.py:py_get_class_summary, src/mcp_client.py:py_get_definition, src/mcp_client.py:py_get_hierarchy, src/mcp_client.py:py_get_imports, src/mcp_client.py:py_get_signature, src/mcp_client.py:py_get_symbol_info, src/mcp_client.py:py_get_var_declaration, src/mcp_client.py:search_files, src/mcp_client.py:set_file_slice, src/mcp_client.py:web_search, src/models.py:parse_history_entries, src/multi_agent_conductor.py:ConductorEngine.kill_worker, src/multi_agent_conductor.py:WorkerPool.join_all, src/orchestrator_pm.py:generate_tracks, src/orchestrator_pm.py:get_track_history_summary, src/outline_tool.py:CodeOutliner.outline, src/performance_monitor.py:PerformanceMonitor.stop, src/project_manager.py:str_to_entry, src/rag_engine.py:RAGEngine._init_vector_store, src/rag_engine.py:RAGEngine.index_file, src/session_logger.py:open_session, src/shell_runner.py:_build_subprocess_env, src/shell_runner.py:run_powershell, src/summarize.py:_summarise_generic, src/summarize.py:_summarise_markdown, src/summarize.py:_summarise_python, src/summarize.py:_summarise_toml, src/summarize.py:build_summary_markdown, src/synthesis_formatter.py:format_takes_diff, src/tool_bias.py:ToolBiasEngine.generate_tooling_strategy, tests/conftest.py:live_gui, tests/conftest.py:module, tests/mock_gemini_cli.py:main, tests/smoke_status_hook.py:module, tests/test_agent_capabilities.py:module, tests/test_agent_tools_wiring.py:module, tests/test_ai_client_concurrency.py:test_ai_client_tier_isolation, tests/test_api_hook_client.py:module, tests/test_api_hook_extensions.py:module, tests/test_arch_boundary_phase1.py:module, tests/test_arch_boundary_phase2.py:module, tests/test_arch_boundary_phase3.py:module, tests/test_auto_switch_sim.py:module, tests/test_cli_tool_bridge.py:module, tests/test_cli_tool_bridge_mapping.py:module, tests/test_context_composition_phase3.py:test_compute_file_stats, tests/test_context_pruner.py:test_performance_large_file, tests/test_context_pruner.py:test_token_reduction_logging, tests/test_deepseek_infra.py:module, tests/test_extended_sims.py:module, tests/test_external_editor_gui.py:module, tests/test_gemini_metrics.py:module, tests/test_gui2_parity.py:module, tests/test_gui2_performance.py:module, tests/test_gui_diagnostics.py:module, tests/test_gui_performance_requirements.py:module, tests/test_gui_stress_performance.py:module, tests/test_gui_updates.py:module, tests/test_headless_service.py:module, tests/test_history_management.py:module, tests/test_hooks.py:module, tests/test_layout_reorganization.py:module, tests/test_live_workflow.py:module, tests/test_log_pruning_heuristic.py:TestLogPruningHeuristic.test_prune_handles_relative_paths_starting_with_logs, tests/test_log_pruning_heuristic.py:TestLogPruningHeuristic.test_prune_removes_empty_sessions_regardless_of_age, tests/test_log_pruning_heuristic.py:TestLogPruningHeuristic.test_prune_removes_sessions_without_metadata_regardless_of_age, tests/test_log_registry.py:TestLogRegistry.setUp, tests/test_mcp_perf_tool.py:module, tests/test_mcp_ts_integration.py:module, tests/test_mma_approval_indicators.py:_collect_text_colored_args, tests/test_mma_concurrent_tracks_sim.py:module, tests/test_mma_concurrent_tracks_stress_sim.py:module, tests/test_mma_dashboard_streams.py:TestMMADashboardStreams.test_tier3_renders_worker_subheaders, tests/test_mma_step_mode_sim.py:module, tests/test_patch_modal_gui.py:module, tests/test_performance_monitor.py:module, tests/test_phase6_simulation.py:module, tests/test_rag_integration.py:mock_project, tests/test_rag_integration.py:test_rag_integration, tests/test_rag_phase4_final_verify.py:module, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:module, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim, tests/test_rag_visual_sim.py:module, tests/test_selectable_ui.py:module, tests/test_sim_ai_settings.py:module, tests/test_sim_base.py:module, tests/test_sim_context.py:module, tests/test_sim_execution.py:module, tests/test_sim_tools.py:module, tests/test_skeleton_injection.py:test_update_inject_preview_truncation, tests/test_spawn_interception_v2.py:test_confirm_spawn_pushed_to_queue, tests/test_system_prompt_exposure.py:module, tests/test_token_usage.py:module, tests/test_tool_management_layout.py:module, tests/test_ts_c_tools.py:module, tests/test_ts_cpp_tools.py:module, tests/test_ui_cache_controls_sim.py:module, tests/test_user_agent.py:module, tests/test_visual_orchestration.py:module, tests/test_visual_sim_mma_v2.py:module, tests/test_workflow_sim.py:module, tests/test_workspace_profiles_sim.py:module]
   """
   self._queue.join()
 
@@ -157,12 +168,13 @@ SyncEventQueue = AsyncEventQueue
 class UserRequestEvent:
  """
  
-  Payload for a user request event.
+  
+   Payload for a user request event.
  """
 
  def __init__(self, prompt: str, stable_md: str, file_items: List[Any], disc_text: str, base_dir: str) -> None:
   """
-  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+    [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   self.prompt = prompt
   self.stable_md = stable_md
@@ -172,7 +184,7 @@ class UserRequestEvent:
 
  def to_dict(self) -> Dict[str, Any]:
   """
-  [C: src/gui_2.py:App._take_snapshot, src/gui_2.py:App.save_context_preset, src/models.py:ExternalEditorConfig.to_dict, src/models.py:MCPConfiguration.to_dict, src/models.py:RAGConfig.to_dict, src/models.py:ToolPreset.to_dict, src/models.py:Track.to_dict, src/models.py:TrackState.to_dict, src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+    [C: src/gui_2.py:App._take_snapshot, src/gui_2.py:App.save_context_preset, src/models.py:ContextPreset.to_dict, src/models.py:ExternalEditorConfig.to_dict, src/models.py:MCPConfiguration.to_dict, src/models.py:RAGConfig.to_dict, src/models.py:ToolPreset.to_dict, src/models.py:Track.to_dict, src/models.py:TrackState.to_dict, src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
   """
   def _make_serializable(obj: Any) -> Any:
    if isinstance(obj, dict):
diff --git a/src/external_editor.py b/src/external_editor.py
index 39c6608..3496380 100644
--- a/src/external_editor.py
+++ b/src/external_editor.py
@@ -13,13 +13,13 @@ from src.models import ExternalEditorConfig, TextEditorConfig
 class ExternalEditorLauncher:
     def __init__(self, config: ExternalEditorConfig):
         """
-        [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+                [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
         """
         self.config = config
 
     def get_editor(self, editor_name: Optional[str] = None) -> Optional[TextEditorConfig]:
         """
-        [C: tests/test_external_editor.py:TestExternalEditorLauncher.test_get_editor_by_name, tests/test_external_editor.py:TestExternalEditorLauncher.test_get_editor_returns_default, tests/test_external_editor.py:TestExternalEditorLauncher.test_get_editor_unknown_name]
+                [C: tests/test_external_editor.py:TestExternalEditorLauncher.test_get_editor_by_name, tests/test_external_editor.py:TestExternalEditorLauncher.test_get_editor_returns_default, tests/test_external_editor.py:TestExternalEditorLauncher.test_get_editor_unknown_name]
         """
         if editor_name:
             return self.config.editors.get(editor_name)
@@ -29,7 +29,7 @@ class ExternalEditorLauncher:
         self, editor: TextEditorConfig, original_path: str, modified_path: str
     ) -> List[str]:
         """
-        [C: tests/test_external_editor.py:TestExternalEditorLauncher.test_build_diff_command, tests/test_external_editor_gui.py:test_verify_command_format, tests/test_external_editor_gui.py:test_verify_vscode_command_format]
+                [C: tests/test_external_editor.py:TestExternalEditorLauncher.test_build_diff_command, tests/test_external_editor_gui.py:test_verify_command_format, tests/test_external_editor_gui.py:test_verify_vscode_command_format]
         """
         cmd = [editor.path] + editor.diff_args + [original_path, modified_path]
         return cmd
@@ -38,7 +38,7 @@ class ExternalEditorLauncher:
         self, editor_name: Optional[str], original_path: str, modified_path: str
     ) -> Optional[subprocess.Popen]:
         """
-        [C: src/gui_2.py:App._open_patch_in_external_editor, tests/test_external_editor.py:TestExternalEditorLauncher.test_launch_diff_file_not_found, tests/test_external_editor.py:TestExternalEditorLauncher.test_launch_diff_missing_editor, tests/test_external_editor.py:TestExternalEditorLauncher.test_launch_diff_success]
+                [C: src/gui_2.py:App._open_patch_in_external_editor, tests/test_external_editor.py:TestExternalEditorLauncher.test_launch_diff_file_not_found, tests/test_external_editor.py:TestExternalEditorLauncher.test_launch_diff_missing_editor, tests/test_external_editor.py:TestExternalEditorLauncher.test_launch_diff_success]
         """
         editor = self.get_editor(editor_name)
         if not editor:
@@ -117,7 +117,7 @@ def auto_detect_vscode() -> Optional[TextEditorConfig]:
 
 def get_default_launcher() -> ExternalEditorLauncher:
     """
-    [C: src/gui_2.py:App._open_patch_in_external_editor, src/gui_2.py:App._render_external_editor_panel]
+        [C: src/gui_2.py:App._open_patch_in_external_editor, src/gui_2.py:App._render_external_editor_panel]
     """
     from src import models
     config = models.load_config()
@@ -142,7 +142,7 @@ def get_default_launcher() -> ExternalEditorLauncher:
 
 def create_temp_modified_file(content: str) -> str:
     """
-    [C: src/gui_2.py:App._open_patch_in_external_editor, tests/test_external_editor.py:TestHelperFunctions.test_create_temp_modified_file]
+        [C: src/gui_2.py:App._open_patch_in_external_editor, tests/test_external_editor.py:TestHelperFunctions.test_create_temp_modified_file]
     """
     with tempfile.NamedTemporaryFile(mode="w", suffix="_modified", delete=False, encoding="utf-8") as f:
         f.write(content)
diff --git a/src/file_cache.py b/src/file_cache.py
index 52cb01c..0aa2aad 100644
--- a/src/file_cache.py
+++ b/src/file_cache.py
@@ -47,13 +47,14 @@ _ast_cache: Dict[str, Tuple[float, tree_sitter.Tree]] = {}
 class ASTParser:
  """
  
-     Parser for extracting AST-based views of source code.
-     Currently supports Python.
+  
+      Parser for extracting AST-based views of source code.
+      Currently supports Python.
  """
  #region: Core Operations
  def __init__(self, language: str) -> None:
   """
-  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+    [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   if language not in ("python", "cpp", "c"):
    raise ValueError(f"Language '{language}' not supported yet.")
@@ -69,7 +70,8 @@ class ASTParser:
 
  def parse(self, code: str) -> tree_sitter.Tree:
   """
-  Parse the given code and return the tree-sitter Tree.
+  
+    Parse the given code and return the tree-sitter Tree.
     [C: src/mcp_client.py:_search_file, src/mcp_client.py:derive_code_path, src/mcp_client.py:py_check_syntax, src/mcp_client.py:py_get_class_summary, src/mcp_client.py:py_get_definition, src/mcp_client.py:py_get_docstring, src/mcp_client.py:py_get_imports, src/mcp_client.py:py_get_signature, src/mcp_client.py:py_get_symbol_info, src/mcp_client.py:py_get_var_declaration, src/mcp_client.py:py_set_signature, src/mcp_client.py:py_set_var_declaration, src/mcp_client.py:py_update_definition, src/mcp_client.py:trace, src/outline_tool.py:CodeOutliner.outline, src/rag_engine.py:RAGEngine._chunk_code, src/summarize.py:_summarise_python, tests/test_ast_parser.py:test_ast_parser_parse, tests/test_tree_sitter_setup.py:test_tree_sitter_python_setup]
   """
   return self.parser.parse(bytes(code, "utf8"))
@@ -185,7 +187,8 @@ class ASTParser:
  def get_skeleton(self, code: str, path: Optional[str] = None) -> str:
   """
   
-          Returns a skeleton of a Python file (preserving docstrings, stripping function bodies).
+    
+            Returns a skeleton of a Python file (preserving docstrings, stripping function bodies).
     [C: src/mcp_client.py:py_get_skeleton, src/mcp_client.py:ts_c_get_skeleton, src/mcp_client.py:ts_cpp_get_skeleton, src/multi_agent_conductor.py:run_worker_lifecycle, tests/test_ast_parser.py:test_ast_parser_get_skeleton_c, tests/test_ast_parser.py:test_ast_parser_get_skeleton_cpp, tests/test_ast_parser.py:test_ast_parser_get_skeleton_python, tests/test_context_pruner.py:test_ast_caching, tests/test_context_pruner.py:test_performance_large_file]
   """
   code_bytes = code.encode("utf8")
@@ -200,7 +203,7 @@ class ASTParser:
 
   def walk(node: tree_sitter.Node) -> None:
    """
-   [C: src/mcp_client.py:_search_file, src/mcp_client.py:py_find_usages, src/mcp_client.py:py_get_hierarchy, src/mcp_client.py:trace, src/outline_tool.py:CodeOutliner.outline, src/outline_tool.py:CodeOutliner.walk, src/summarize.py:_summarise_python]
+      [C: src/mcp_client.py:_search_file, src/mcp_client.py:py_find_usages, src/mcp_client.py:py_get_hierarchy, src/mcp_client.py:trace, src/outline_tool.py:CodeOutliner.outline, src/outline_tool.py:CodeOutliner.walk, src/summarize.py:_summarise_python]
    """
    if node.type == "function_definition":
     body = node.child_by_field_name("body")
@@ -238,9 +241,10 @@ class ASTParser:
  def get_curated_view(self, code: str, path: Optional[str] = None) -> str:
   """
   
-          Returns a curated skeleton of a Python file.
-          Preserves function bodies if they have @core_logic decorator or # [HOT] comment.
-          Otherwise strips bodies but preserves docstrings.
+    
+            Returns a curated skeleton of a Python file.
+            Preserves function bodies if they have @core_logic decorator or # [HOT] comment.
+            Otherwise strips bodies but preserves docstrings.
     [C: src/multi_agent_conductor.py:run_worker_lifecycle, tests/test_ast_parser.py:test_ast_parser_get_curated_view]
   """
   code_bytes = code.encode("utf8")
@@ -279,7 +283,7 @@ class ASTParser:
 
   def walk(node: tree_sitter.Node) -> None:
    """
-   [C: src/mcp_client.py:_search_file, src/mcp_client.py:py_find_usages, src/mcp_client.py:py_get_hierarchy, src/mcp_client.py:trace, src/outline_tool.py:CodeOutliner.outline, src/outline_tool.py:CodeOutliner.walk, src/summarize.py:_summarise_python]
+      [C: src/mcp_client.py:_search_file, src/mcp_client.py:py_find_usages, src/mcp_client.py:py_get_hierarchy, src/mcp_client.py:trace, src/outline_tool.py:CodeOutliner.outline, src/outline_tool.py:CodeOutliner.walk, src/summarize.py:_summarise_python]
    """
    if node.type == "function_definition":
     body = node.child_by_field_name("body")
@@ -317,8 +321,9 @@ class ASTParser:
  def get_targeted_view(self, code: str, function_names: List[str], path: Optional[str] = None) -> str:
   """
   
-          Returns a targeted view of the code including only the specified functions
-          and their dependencies up to depth 2.
+    
+            Returns a targeted view of the code including only the specified functions
+            and their dependencies up to depth 2.
     [C: src/multi_agent_conductor.py:run_worker_lifecycle, tests/test_ast_parser.py:test_ast_parser_get_targeted_view, tests/test_context_pruner.py:test_class_targeted_extraction, tests/test_context_pruner.py:test_targeted_extraction]
   """
   code_bytes = code.encode("utf8")
@@ -482,8 +487,9 @@ class ASTParser:
  #region: Symbol Extraction
  def get_definition(self, code: str, name: str, path: Optional[str] = None) -> str:
   """
-    Returns the full source code for a specific definition by name.
-    Supports 'ClassName::method' or 'method' for C++.
+  
+      Returns the full source code for a specific definition by name.
+      Supports 'ClassName::method' or 'method' for C++.
     [C: src/mcp_client.py:trace, src/mcp_client.py:ts_c_get_definition, src/mcp_client.py:ts_cpp_get_definition, tests/test_ast_parser.py:test_ast_parser_get_definition_c, tests/test_ast_parser.py:test_ast_parser_get_definition_cpp, tests/test_ast_parser.py:test_ast_parser_get_definition_cpp_template]
   """
   code_bytes = code.encode("utf8")
@@ -492,6 +498,9 @@ class ASTParser:
   parts = re.split(r'::|\.', name)
 
   def walk(node: tree_sitter.Node, target_parts: List[str]) -> Optional[tree_sitter.Node]:
+   """
+   [C: src/mcp_client.py:_search_file, src/mcp_client.py:py_find_usages, src/mcp_client.py:py_get_hierarchy, src/mcp_client.py:trace, src/outline_tool.py:CodeOutliner.outline, src/outline_tool.py:CodeOutliner.walk, src/summarize.py:_summarise_python]
+   """
    if not target_parts:
     return None
    target = target_parts[0]
@@ -578,8 +587,9 @@ class ASTParser:
  def get_signature(self, code: str, name: str, path: Optional[str] = None) -> str:
   """
   
-    Returns only the signature part of a function or method.
-    For C/C++, this is the code from the start of the definition until the block start '{'.
+    
+      Returns only the signature part of a function or method.
+      For C/C++, this is the code from the start of the definition until the block start '{'.
     [C: src/mcp_client.py:ts_c_get_signature, src/mcp_client.py:ts_cpp_get_signature, tests/test_ast_parser.py:test_ast_parser_get_signature_c, tests/test_ast_parser.py:test_ast_parser_get_signature_cpp]
   """
   code_bytes = code.encode("utf8")
@@ -588,6 +598,9 @@ class ASTParser:
   parts = re.split(r'::|\.', name)
 
   def walk(node: tree_sitter.Node, target_parts: List[str]) -> Optional[tree_sitter.Node]:
+   """
+   [C: src/mcp_client.py:_search_file, src/mcp_client.py:py_find_usages, src/mcp_client.py:py_get_hierarchy, src/mcp_client.py:trace, src/outline_tool.py:CodeOutliner.outline, src/outline_tool.py:CodeOutliner.walk, src/summarize.py:_summarise_python]
+   """
    if not target_parts:
     return None
    target = target_parts[0]
@@ -687,7 +700,8 @@ class ASTParser:
  def get_code_outline(self, code: str, path: Optional[str] = None) -> str:
   """
   
-          Returns a hierarchical outline of the code (classes, structs, functions, methods).
+    
+            Returns a hierarchical outline of the code (classes, structs, functions, methods).
     [C: src/mcp_client.py:ts_c_get_code_outline, src/mcp_client.py:ts_cpp_get_code_outline, tests/test_ast_parser.py:test_ast_parser_get_code_outline_c, tests/test_ast_parser.py:test_ast_parser_get_code_outline_cpp]
   """
   code_bytes = code.encode("utf8")
@@ -696,7 +710,7 @@ class ASTParser:
 
   def walk(node: tree_sitter.Node, indent: int = 0) -> None:
    """
-   [C: src/mcp_client.py:_search_file, src/mcp_client.py:py_find_usages, src/mcp_client.py:py_get_hierarchy, src/mcp_client.py:trace, src/outline_tool.py:CodeOutliner.outline, src/outline_tool.py:CodeOutliner.walk, src/summarize.py:_summarise_python]
+      [C: src/mcp_client.py:_search_file, src/mcp_client.py:py_find_usages, src/mcp_client.py:py_get_hierarchy, src/mcp_client.py:trace, src/outline_tool.py:CodeOutliner.outline, src/outline_tool.py:CodeOutliner.walk, src/summarize.py:_summarise_python]
    """
    ntype = node.type
    label = ""
@@ -728,7 +742,8 @@ class ASTParser:
  def update_definition(self, code: str, name: str, new_content: str, path: Optional[str] = None) -> str:
   """
   
-    Surgically replace the definition of a class or function by name.
+    
+      Surgically replace the definition of a class or function by name.
     [C: src/mcp_client.py:ts_c_update_definition, src/mcp_client.py:ts_cpp_update_definition, tests/test_ast_parser.py:test_ast_parser_update_definition_cpp]
   """
   code_bytes = code.encode("utf8")
@@ -737,6 +752,9 @@ class ASTParser:
   parts = re.split(r'::|\.', name)
 
   def walk(node: tree_sitter.Node, target_parts: List[str]) -> Optional[tree_sitter.Node]:
+   """
+   [C: src/mcp_client.py:_search_file, src/mcp_client.py:py_find_usages, src/mcp_client.py:py_get_hierarchy, src/mcp_client.py:trace, src/outline_tool.py:CodeOutliner.outline, src/outline_tool.py:CodeOutliner.walk, src/summarize.py:_summarise_python]
+   """
    if not target_parts:
     return None
    target = target_parts[0]
@@ -830,4 +848,3 @@ def reset_client() -> None:
 def get_file_id(path: Path) -> Optional[str]:
  return None
 #endregion: Module Level Utilities
-
diff --git a/src/fuzzy_anchor.py b/src/fuzzy_anchor.py
index d5df414..ab69f00 100644
--- a/src/fuzzy_anchor.py
+++ b/src/fuzzy_anchor.py
@@ -16,7 +16,10 @@ class FuzzyAnchor:
 
     @classmethod
     def create_slice(cls, text: str, start_line: int, end_line: int) -> dict:
-        """start_line and end_line are 1-based."""
+        """
+        start_line and end_line are 1-based.
+                [C: src/gui_2.py:App._populate_auto_slices, src/gui_2.py:App._render_text_viewer_window, tests/test_fuzzy_anchor.py:TestFuzzyAnchor.test_create_slice_basic, tests/test_fuzzy_anchor.py:TestFuzzyAnchor.test_resolve_slice_anchor_mismatch_returns_none, tests/test_fuzzy_anchor.py:TestFuzzyAnchor.test_resolve_slice_exact_match, tests/test_fuzzy_anchor.py:TestFuzzyAnchor.test_resolve_slice_line_deleted_before_returns_none, tests/test_fuzzy_anchor.py:TestFuzzyAnchor.test_resolve_slice_line_inserted_before, tests/test_fuzzy_anchor.py:TestFuzzyAnchor.test_resolve_slice_multiple_lines_changed, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations]
+        """
         lines = text.splitlines()
         s_idx = max(0, start_line - 1)
         e_idx = min(len(lines), end_line)
@@ -33,6 +36,9 @@ class FuzzyAnchor:
 
     @classmethod
     def resolve_slice(cls, text: str, slice_data: dict) -> Optional[Tuple[int, int]]:
+        """
+        [C: tests/test_fuzzy_anchor.py:TestFuzzyAnchor.test_resolve_slice_anchor_mismatch_returns_none, tests/test_fuzzy_anchor.py:TestFuzzyAnchor.test_resolve_slice_exact_match, tests/test_fuzzy_anchor.py:TestFuzzyAnchor.test_resolve_slice_line_deleted_before_returns_none, tests/test_fuzzy_anchor.py:TestFuzzyAnchor.test_resolve_slice_line_inserted_before, tests/test_fuzzy_anchor.py:TestFuzzyAnchor.test_resolve_slice_multiple_lines_changed]
+        """
         lines = text.splitlines()
         # 1. Try exact match
         s_idx = slice_data["start_line"] - 1
@@ -79,4 +85,4 @@ class FuzzyAnchor:
         if best_e != -1:
             return (best_s + 1, best_e)
         
-        return None
+        return None
\ No newline at end of file
diff --git a/src/gemini_cli_adapter.py b/src/gemini_cli_adapter.py
index f8ec5d5..a2a41e5 100644
--- a/src/gemini_cli_adapter.py
+++ b/src/gemini_cli_adapter.py
@@ -45,11 +45,13 @@ from typing import Optional, Callable, Any
 class GeminiCliAdapter:
  """
  
-     Adapter for the Gemini CLI that parses streaming JSON output.
+  
+      Adapter for the Gemini CLI that parses streaming JSON output.
  """
  def __init__(self, binary_path: str = "gemini"):
   """
-  Initializes the adapter with the path to the gemini CLI executable.
+  
+    Initializes the adapter with the path to the gemini CLI executable.
     [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   self.binary_path = binary_path
@@ -61,9 +63,10 @@ class GeminiCliAdapter:
           model: str | None = None, stream_callback: Optional[Callable[[str], None]] = None) -> dict[str, Any]:
   """
   
-          Sends a message to the Gemini CLI and processes the streaming JSON output.
-          Uses non-blocking line-by-line reading to allow stream_callback.
-    [C: simulation/user_agent.py:UserSimAgent.generate_response, src/multi_agent_conductor.py:run_worker_lifecycle, src/native_orchestrator.py:NativeOrchestrator.execute_ticket, src/orchestrator_pm.py:generate_tracks, tests/test_ai_cache_tracking.py:test_gemini_cache_tracking, tests/test_ai_client_cli.py:test_ai_client_send_gemini_cli, tests/test_api_events.py:test_send_emits_events_proper, tests/test_api_events.py:test_send_emits_tool_events, tests/test_deepseek_provider.py:test_deepseek_completion_logic, tests/test_deepseek_provider.py:test_deepseek_payload_verification, tests/test_deepseek_provider.py:test_deepseek_reasoner_payload_verification, tests/test_deepseek_provider.py:test_deepseek_reasoning_logic, tests/test_deepseek_provider.py:test_deepseek_streaming, tests/test_deepseek_provider.py:test_deepseek_tool_calling, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_full_flow_integration, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_send_captures_usage_metadata, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_send_handles_tool_use_events, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_send_parses_jsonl_output, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_send_starts_subprocess_with_correct_args, tests/test_gemini_cli_adapter_parity.py:TestGeminiCliAdapterParity.test_send_parses_tool_calls_from_streaming_json, tests/test_gemini_cli_adapter_parity.py:TestGeminiCliAdapterParity.test_send_starts_subprocess_with_model, tests/test_gemini_cli_edge_cases.py:test_gemini_cli_context_bleed_prevention, tests/test_gemini_cli_edge_cases.py:test_gemini_cli_loop_termination, tests/test_gemini_cli_integration.py:test_gemini_cli_full_integration, tests/test_gemini_cli_integration.py:test_gemini_cli_rejection_and_history, tests/test_gemini_cli_parity_regression.py:test_get_history_bleed_stats, tests/test_gemini_cli_parity_regression.py:test_send_invokes_adapter_send, tests/test_gui2_mcp.py:test_mcp_tool_call_is_dispatched, tests/test_tier4_interceptor.py:test_ai_client_passes_qa_callback, tests/test_token_usage.py:test_token_usage_tracking, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
+    
+            Sends a message to the Gemini CLI and processes the streaming JSON output.
+            Uses non-blocking line-by-line reading to allow stream_callback.
+    [C: simulation/user_agent.py:UserSimAgent.generate_response, src/multi_agent_conductor.py:run_worker_lifecycle, src/orchestrator_pm.py:generate_tracks, tests/test_ai_cache_tracking.py:test_gemini_cache_tracking, tests/test_ai_client_cli.py:test_ai_client_send_gemini_cli, tests/test_api_events.py:test_send_emits_events_proper, tests/test_api_events.py:test_send_emits_tool_events, tests/test_deepseek_provider.py:test_deepseek_completion_logic, tests/test_deepseek_provider.py:test_deepseek_payload_verification, tests/test_deepseek_provider.py:test_deepseek_reasoner_payload_verification, tests/test_deepseek_provider.py:test_deepseek_reasoning_logic, tests/test_deepseek_provider.py:test_deepseek_streaming, tests/test_deepseek_provider.py:test_deepseek_tool_calling, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_full_flow_integration, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_send_captures_usage_metadata, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_send_handles_tool_use_events, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_send_parses_jsonl_output, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_send_starts_subprocess_with_correct_args, tests/test_gemini_cli_adapter_parity.py:TestGeminiCliAdapterParity.test_send_parses_tool_calls_from_streaming_json, tests/test_gemini_cli_adapter_parity.py:TestGeminiCliAdapterParity.test_send_starts_subprocess_with_model, tests/test_gemini_cli_edge_cases.py:test_gemini_cli_context_bleed_prevention, tests/test_gemini_cli_edge_cases.py:test_gemini_cli_loop_termination, tests/test_gemini_cli_integration.py:test_gemini_cli_full_integration, tests/test_gemini_cli_integration.py:test_gemini_cli_rejection_and_history, tests/test_gemini_cli_parity_regression.py:test_send_invokes_adapter_send, tests/test_gui2_mcp.py:test_mcp_tool_call_is_dispatched, tests/test_tier4_interceptor.py:test_ai_client_passes_qa_callback, tests/test_token_usage.py:test_token_usage_tracking, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
   """
   start_time = time.time()
   command_parts = [self.binary_path]
@@ -192,9 +195,10 @@ class GeminiCliAdapter:
  def count_tokens(self, contents: list[str]) -> int:
   """
   
-          Provides a character-based token estimation for the Gemini CLI.
-          Uses 4 chars/token as a conservative average.
+    
+            Provides a character-based token estimation for the Gemini CLI.
+            Uses 4 chars/token as a conservative average.
     [C: tests/test_gemini_cli_adapter_parity.py:TestGeminiCliAdapterParity.test_count_tokens_fallback]
   """
   total_chars = len("\n".join(contents))
-  return total_chars // 4
+  return total_chars // 4
\ No newline at end of file
diff --git a/src/gui_2.py b/src/gui_2.py
index b45755e..6c2f888 100644
--- a/src/gui_2.py
+++ b/src/gui_2.py
@@ -101,7 +101,7 @@ class App:
  def __init__(self) -> None:
   # Initialize controller and delegate state
   """
-  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+    [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   # --- Core Dependencies & State ---
   self.controller = app_controller.AppController()
@@ -265,8 +265,9 @@ class App:
 
  def run(self) -> None:
   """
-  Initializes the ImGui runner and starts the main application loop.
-    [C: simulation/sim_base.py:run_sim, src/mcp_client.py:get_git_diff, src/project_manager.py:get_git_commit, src/project_manager.py:get_git_log, src/rag_engine.py:RAGEngine._search_mcp, src/shell_runner.py:run_powershell, tests/conftest.py:kill_process_tree, tests/conftest.py:live_gui, tests/test_conductor_abort_event.py:test_conductor_abort_event_populated, tests/test_conductor_engine_v2.py:test_conductor_engine_dynamic_parsing_and_execution, tests/test_conductor_engine_v2.py:test_conductor_engine_run_executes_tickets_in_order, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_external_editor_gui.py:get_vscode_processes, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui_custom_window.py:test_app_window_is_borderless, tests/test_headless_simulation.py:module, tests/test_headless_verification.py:test_headless_verification_error_and_qa_interceptor, tests/test_headless_verification.py:test_headless_verification_full_run, tests/test_mock_gemini_cli.py:run_mock, tests/test_orchestration_logic.py:test_conductor_engine_run, tests/test_parallel_execution.py:test_conductor_engine_pool_integration, tests/test_sim_ai_settings.py:test_ai_settings_simulation_run, tests/test_sim_context.py:test_context_simulation_run, tests/test_sim_execution.py:test_execution_simulation_run, tests/test_sim_tools.py:test_tools_simulation_run]
+  
+    Initializes the ImGui runner and starts the main application loop.
+    [C: simulation/sim_base.py:run_sim, src/mcp_client.py:get_git_diff, src/project_manager.py:get_git_commit, src/rag_engine.py:RAGEngine._search_mcp, src/shell_runner.py:run_powershell, tests/conftest.py:kill_process_tree, tests/conftest.py:live_gui, tests/test_conductor_abort_event.py:test_conductor_abort_event_populated, tests/test_conductor_engine_v2.py:test_conductor_engine_dynamic_parsing_and_execution, tests/test_conductor_engine_v2.py:test_conductor_engine_run_executes_tickets_in_order, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_external_editor_gui.py:get_vscode_processes, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui_custom_window.py:test_app_window_is_borderless, tests/test_headless_simulation.py:module, tests/test_headless_verification.py:test_headless_verification_error_and_qa_interceptor, tests/test_headless_verification.py:test_headless_verification_full_run, tests/test_mock_gemini_cli.py:run_mock, tests/test_orchestration_logic.py:test_conductor_engine_run, tests/test_parallel_execution.py:test_conductor_engine_pool_integration, tests/test_sim_ai_settings.py:test_ai_settings_simulation_run, tests/test_sim_context.py:test_context_simulation_run, tests/test_sim_execution.py:test_execution_simulation_run, tests/test_sim_tools.py:test_tools_simulation_run]
   """
   if "--headless" in sys.argv:
    print("Headless mode active")
@@ -544,7 +545,8 @@ class App:
 
  def shutdown(self) -> None:
   """
-  Cleanly shuts down the app's background tasks and saves state.
+  
+    Cleanly shuts down the app's background tasks and saves state.
     [C: tests/conftest.py:app_instance, tests/conftest.py:mock_app]
   """
   try:
@@ -556,7 +558,7 @@ class App:
 
  def save_context_preset(self, name: str) -> None:
   """
-  [C: tests/test_context_presets.py:test_save_context_preset]
+    [C: tests/test_context_presets.py:test_save_context_preset]
   """
   sys.stderr.write(f"[DEBUG] save_context_preset called with: {name}\n")
   sys.stderr.flush()
@@ -577,7 +579,7 @@ class App:
 
  def load_context_preset(self, name: str) -> None:
   """
-  [C: tests/test_context_presets.py:test_load_context_preset, tests/test_context_presets.py:test_load_nonexistent_preset]
+    [C: tests/test_context_presets.py:test_load_context_preset, tests/test_context_presets.py:test_load_nonexistent_preset]
   """
   presets = self.controller.project.get('context_presets', {})
   if name in presets:
@@ -588,7 +590,7 @@ class App:
 
  def delete_context_preset(self, name: str) -> None:
   """
-  [C: tests/test_context_presets.py:test_delete_context_preset, tests/test_context_presets.py:test_delete_nonexistent_preset_no_error]
+    [C: tests/test_context_presets.py:test_delete_context_preset, tests/test_context_presets.py:test_delete_nonexistent_preset_no_error]
   """
   if 'context_presets' in self.controller.project:
    self.controller.project['context_presets'].pop(name, None)
@@ -890,7 +892,7 @@ class App:
 
  def _show_menus(self) -> None:
   """
-  [C: tests/test_gui_window_controls.py:test_gui_window_controls_minimize_maximize_close]
+    [C: tests/test_gui_window_controls.py:test_gui_window_controls_minimize_maximize_close]
   """
   with imscope.menu("manual slop") as (active):
    if active and imgui.menu_item("Quit", "Ctrl+Q", False)[0]:
@@ -1026,7 +1028,8 @@ class App:
 
  def _handle_history_logic(self) -> None:
   """
-  Logic for capturing UI state for undo/redo.
+  
+    Logic for capturing UI state for undo/redo.
   """
   if self._is_applying_snapshot:
    return
@@ -1209,7 +1212,7 @@ class App:
 
  def _render_shader_live_editor(self) -> None:
   """
-  [C: tests/test_shader_live_editor.py:test_shader_live_editor_renders]
+    [C: tests/test_shader_live_editor.py:test_shader_live_editor_renders]
   """
   if self.show_windows.get('Shader Editor', False):
    with imscope.window('Shader Editor', self.show_windows['Shader Editor']) as (exp, opened):
@@ -1524,7 +1527,7 @@ class App:
 
  def _render_log_management(self) -> None:
   """
-  [C: tests/test_log_management_ui.py:test_render_log_management_logic]
+    [C: tests/test_log_management_ui.py:test_render_log_management_logic]
   """
   if self.perf_profiling_enabled: self.perf_monitor.start_component("_render_log_management")
   with imscope.window("Log Management", self.show_windows["Log Management"]) as (exp, opened):
@@ -1791,7 +1794,7 @@ class App:
 
  def _save_paths(self) -> None:
   """
-  [C: tests/test_gui_paths.py:test_save_paths]
+    [C: tests/test_gui_paths.py:test_save_paths]
   """
   self.config["paths"] = {
    "logs_dir": self.ui_logs_dir,
@@ -2567,6 +2570,9 @@ class App:
 #region: Context Management
 
  def _render_files_and_media(self) -> None:
+  """
+  [C: tests/test_gui_fast_render.py:test_render_files_and_media_fast]
+  """
   avail = imgui.get_content_region_avail().y
   if not hasattr(self, 'files_screenshots_split'): self.files_screenshots_split = 0.65
   split_y = int(avail * self.files_screenshots_split)
@@ -2787,6 +2793,9 @@ class App:
   if self.perf_profiling_enabled: self.perf_monitor.end_component("_render_screenshots_panel")
 
  def _render_context_composition_panel(self) -> None:
+  """
+  [C: tests/test_auto_slices.py:test_add_all_triggers_auto_slices, tests/test_gui_fast_render.py:test_render_context_composition_panel_fast]
+  """
   if imgui.collapsing_header("Context Composition##panel"):
    total_lines, total_ast = self._update_context_file_stats()
    self._render_context_batch_actions(total_lines, total_ast)
@@ -2799,6 +2808,9 @@ class App:
    self._render_context_presets()
 
  def _render_ast_inspector_modal(self) -> None:
+  """
+  [C: tests/test_ast_inspector_extended.py:test_ast_inspector_line_range_parsing]
+  """
   if self._show_ast_inspector:
    imgui.open_popup('AST Inspector')
    self._show_ast_inspector = False
@@ -2933,6 +2945,9 @@ class App:
   if not opened: self.ui_inspecting_ast_file = None
 
  def _render_add_context_files_modal(self) -> None:
+  """
+  [C: tests/test_auto_slices.py:test_add_selected_triggers_auto_slices]
+  """
   if imgui.begin_popup_modal("Select Context Files", None, imgui.WindowFlags_.always_auto_resize)[0]:
    imgui.text("Select files from project to add to context:")
    if imgui.begin_child("ctx_picker_list", imgui.ImVec2(600, 300), True):
@@ -3018,6 +3033,9 @@ class App:
    if imgui.button(f"Delete##{name}"): self.delete_context_preset(name)
 
  def _populate_auto_slices(self, f_item: models.FileItem) -> None:
+  """
+  [C: tests/test_auto_slices.py:test_populate_auto_slices_basic]
+  """
   from src import mcp_client
   import re
   mcp_client.configure([{"path": f_item.path}])
@@ -3415,7 +3433,7 @@ class App:
 
  def _render_discussion_panel(self) -> None:
   """
-  [C: tests/test_discussion_takes_gui.py:test_render_discussion_tabs, tests/test_discussion_takes_gui.py:test_switching_discussion_via_tabs, tests/test_gui_discussion_tabs.py:test_discussion_tabs_rendered, tests/test_gui_phase4.py:test_track_discussion_toggle, tests/test_gui_symbol_navigation.py:test_render_discussion_panel_symbol_lookup]
+    [C: tests/test_discussion_takes_gui.py:test_render_discussion_tabs, tests/test_discussion_takes_gui.py:test_switching_discussion_via_tabs, tests/test_gui_discussion_tabs.py:test_discussion_tabs_rendered, tests/test_gui_fast_render.py:test_render_discussion_panel_fast, tests/test_gui_phase4.py:test_track_discussion_toggle, tests/test_gui_symbol_navigation.py:test_render_discussion_panel_symbol_lookup]
   """
   if self.perf_profiling_enabled: self.perf_monitor.start_component("_render_discussion_panel")
   self._render_thinking_indicator()
@@ -3654,7 +3672,8 @@ class App:
 
  def _render_synthesis_panel(self) -> None:
   """
-  Renders a panel for synthesizing multiple discussion takes.
+  
+    Renders a panel for synthesizing multiple discussion takes.
     [C: tests/test_gui_synthesis.py:test_render_synthesis_panel]
   """
   imgui.text("Select takes to synthesize:")
@@ -4358,7 +4377,7 @@ def hello():
 
  def _reorder_ticket(self, src_idx: int, dst_idx: int) -> None:
   """
-  [C: tests/test_ticket_queue.py:TestReorder.test_reorder_ticket_invalid, tests/test_ticket_queue.py:TestReorder.test_reorder_ticket_valid]
+    [C: tests/test_ticket_queue.py:TestReorder.test_reorder_ticket_invalid, tests/test_ticket_queue.py:TestReorder.test_reorder_ticket_valid]
   """
   if src_idx == dst_idx: return
   new_tickets = list(self.active_tickets)
@@ -4380,7 +4399,7 @@ def hello():
 
  def _render_ticket_queue(self) -> None:
   """
-  [C: tests/test_gui_kill_button.py:test_render_ticket_queue_table_columns]
+    [C: tests/test_gui_kill_button.py:test_render_ticket_queue_table_columns]
   """
   imgui.text("Ticket Queue Management")
   if not self.active_track:
@@ -4678,7 +4697,10 @@ def hello():
     imgui.text_colored(imgui.ImVec4(1, 0, 0, 1), f"Error loading beads: {e}")
 
  def _render_mma_dashboard(self) -> None:
-  """Main MMA dashboard interface."""
+  """
+  Main MMA dashboard interface.
+    [C: tests/test_gui_progress.py:test_render_mma_dashboard_progress, tests/test_mma_approval_indicators.py:TestMMAApprovalIndicators.test_approval_badge_shown_when_ask_dialog_pending, tests/test_mma_approval_indicators.py:TestMMAApprovalIndicators.test_approval_badge_shown_when_mma_approval_pending, tests/test_mma_approval_indicators.py:TestMMAApprovalIndicators.test_approval_badge_shown_when_spawn_pending, tests/test_mma_approval_indicators.py:TestMMAApprovalIndicators.test_no_approval_badge_when_idle]
+  """
   if self.perf_profiling_enabled: self.perf_monitor.start_component("_render_mma_dashboard")
   self._render_mma_focus_selector()
   imgui.separator()
@@ -4708,6 +4730,9 @@ def hello():
   if self.perf_profiling_enabled: self.perf_monitor.end_component("_render_mma_dashboard")
 
  def _render_mma_focus_selector(self) -> None:
+  """
+  [C: tests/test_gui_progress.py:test_render_mma_dashboard_progress]
+  """
   imgui.text("Focus Agent:"); imgui.same_line()
   focus_label = self.ui_focus_agent or "All"
   if imgui.begin_combo("##focus_agent", focus_label, imgui.ComboFlags_.width_fit_preview):
@@ -4795,6 +4820,9 @@ def hello():
    imgui.end_popup()
 
  def _render_mma_track_summary(self) -> None:
+  """
+  [C: tests/test_gui_progress.py:test_render_mma_dashboard_progress]
+  """
   is_nerv = theme.is_nerv_active()
   track_name = self.active_track.description if self.active_track else "None"
   if getattr(self, "ui_project_execution_mode", "native") == "beads": track_name = "Beads Graph"
@@ -4823,15 +4851,24 @@ def hello():
    imgui.text_colored(C_LBL, "ETA:"); imgui.same_line(); imgui.text_colored(C_VAL, f"~{int(eta_mins)}m ({remaining} tickets remaining)")
 
  def _render_mma_epic_planner(self) -> None:
+  """
+  [C: tests/test_gui_progress.py:test_render_mma_dashboard_progress]
+  """
   imgui.text_colored(C_LBL, 'Epic Planning (Tier 1)')
   _, self.ui_epic_input = imgui.input_text_multiline('##epic_input', self.ui_epic_input, imgui.ImVec2(-1, 80))
   if imgui.button('Plan Epic (Tier 1)', imgui.ImVec2(-1, 0)): self._cb_plan_epic()
 
  def _render_mma_conductor_setup(self) -> None:
+  """
+  [C: tests/test_gui_progress.py:test_render_mma_dashboard_progress]
+  """
   if imgui.button("Run Setup Scan"): self._cb_run_conductor_setup()
   if self.ui_conductor_setup_summary: imgui.input_text_multiline("##setup_summary", self.ui_conductor_setup_summary, imgui.ImVec2(-1, 120), imgui.InputTextFlags_.read_only)
 
  def _render_mma_track_browser(self) -> None:
+  """
+  [C: tests/test_gui_progress.py:test_render_mma_dashboard_progress]
+  """
   imgui.text("Track Browser")
   if imgui.begin_table("mma_tracks_table", 4, imgui.TableFlags_.borders | imgui.TableFlags_.row_bg | imgui.TableFlags_.resizable):
    imgui.table_setup_column("Title"); imgui.table_setup_column("Status"); imgui.table_setup_column("Progress"); imgui.table_setup_column("Actions"); imgui.table_headers_row()
@@ -4858,6 +4895,9 @@ def hello():
    self.ui_new_track_name = ""; self.ui_new_track_desc = ""
 
  def _render_mma_global_controls(self) -> None:
+  """
+  [C: tests/test_gui_progress.py:test_render_mma_dashboard_progress]
+  """
   changed, self.mma_step_mode = imgui.checkbox("Step Mode (HITL)", self.mma_step_mode)
   imgui.same_line(); imgui.text(f"Status: {self.mma_status.upper()}")
   if self.controller and hasattr(self.controller, 'engine') and self.controller.engine and hasattr(self.controller.engine, '_pause_event'):
@@ -4876,6 +4916,9 @@ def hello():
    if imgui.button("Go to Approval"): pass
 
  def _render_mma_usage_section(self) -> None:
+  """
+  [C: tests/test_gui_progress.py:test_render_mma_dashboard_progress]
+  """
   imgui.text("Tier Usage (Tokens & Cost)")
   if imgui.begin_table("mma_usage", 5, imgui.TableFlags_.borders | imgui.TableFlags_.row_bg):
    imgui.table_setup_column("Tier"); imgui.table_setup_column("Model"); imgui.table_setup_column("Input"); imgui.table_setup_column("Output"); imgui.table_setup_column("Est. Cost"); imgui.table_headers_row()
@@ -4939,6 +4982,9 @@ def hello():
    if imgui.button(f"Delete##{self.ui_selected_ticket_id}"): self.active_tickets = [t for t in self.active_tickets if str(t.get('id', '')) != self.ui_selected_ticket_id]; self.ui_selected_ticket_id = None; self._push_mma_state_update()
 
  def _render_mma_agent_streams(self) -> None:
+  """
+  [C: tests/test_gui_progress.py:test_render_mma_dashboard_progress]
+  """
   imgui.text("Agent Streams")
   if imgui.begin_tab_bar("mma_streams_tabs"):
    for tier, label, sep_flag_attr in [("Tier 1", "Tier 1", "ui_separate_tier1"), ("Tier 2", "Tier 2 (Tech Lead)", "ui_separate_tier2"), ("Tier 3", None, "ui_separate_tier3"), ("Tier 4", "Tier 4 (QA)", "ui_separate_tier4")]:
@@ -4957,7 +5003,7 @@ def hello():
 
  def _render_tier_stream_panel(self, tier_key: str, stream_key: str | None) -> None:
   """
-  [C: tests/test_mma_dashboard_streams.py:TestMMADashboardStreams.test_tier1_renders_stream_content, tests/test_mma_dashboard_streams.py:TestMMADashboardStreams.test_tier3_renders_worker_subheaders]
+    [C: tests/test_mma_dashboard_streams.py:TestMMADashboardStreams.test_tier1_renders_stream_content, tests/test_mma_dashboard_streams.py:TestMMADashboardStreams.test_tier3_renders_worker_subheaders]
   """
   if self.perf_profiling_enabled: self.perf_monitor.start_component("_render_tier_stream_panel")
   if self.is_viewing_prior_session:
@@ -5066,7 +5112,7 @@ def hello():
 
  def bulk_execute(self) -> None:
   """
-  [C: tests/test_ticket_queue.py:TestBulkOperations.test_bulk_execute]
+    [C: tests/test_ticket_queue.py:TestBulkOperations.test_bulk_execute]
   """
   for tid in self.ui_selected_tickets:
    t = next((t for t in self.active_tickets if str(t.get('id', '')) == tid), None)
@@ -5075,7 +5121,7 @@ def hello():
 
  def bulk_skip(self) -> None:
   """
-  [C: tests/test_ticket_queue.py:TestBulkOperations.test_bulk_skip]
+    [C: tests/test_ticket_queue.py:TestBulkOperations.test_bulk_skip]
   """
   for tid in self.ui_selected_tickets:
    t = next((t for t in self.active_tickets if str(t.get('id', '')) == tid), None)
@@ -5084,7 +5130,7 @@ def hello():
 
  def bulk_block(self) -> None:
   """
-  [C: tests/test_ticket_queue.py:TestBulkOperations.test_bulk_block]
+    [C: tests/test_ticket_queue.py:TestBulkOperations.test_bulk_block]
   """
   for tid in self.ui_selected_tickets:
    t = next((t for t in self.active_tickets if str(t.get('id', '')) == tid), None)
@@ -5145,4 +5191,3 @@ def main() -> None:
 if __name__ == "__main__":
  main()
 
-
diff --git a/src/history.py b/src/history.py
index 54a8776..3cf027f 100644
--- a/src/history.py
+++ b/src/history.py
@@ -21,7 +21,7 @@ class UISnapshot:
 
  def to_dict(self) -> dict:
   """
-  [C: src/models.py:ExternalEditorConfig.to_dict, src/models.py:MCPConfiguration.to_dict, src/models.py:RAGConfig.to_dict, src/models.py:ToolPreset.to_dict, src/models.py:Track.to_dict, src/models.py:TrackState.to_dict, src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+    [C: src/models.py:ContextPreset.to_dict, src/models.py:ExternalEditorConfig.to_dict, src/models.py:MCPConfiguration.to_dict, src/models.py:RAGConfig.to_dict, src/models.py:ToolPreset.to_dict, src/models.py:Track.to_dict, src/models.py:TrackState.to_dict, src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
   """
   return {
    "ai_input": self.ai_input,
@@ -42,7 +42,7 @@ class UISnapshot:
  @classmethod
  def from_dict(cls, data: dict) -> "UISnapshot":
   """
-  [C: src/models.py:ExternalEditorConfig.from_dict, src/models.py:MCPConfiguration.from_dict, src/models.py:RAGConfig.from_dict, src/models.py:ToolPreset.from_dict, src/models.py:Track.from_dict, src/models.py:TrackState.from_dict, src/models.py:load_mcp_config, src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+    [C: src/models.py:ContextPreset.from_dict, src/models.py:ExternalEditorConfig.from_dict, src/models.py:MCPConfiguration.from_dict, src/models.py:RAGConfig.from_dict, src/models.py:ToolPreset.from_dict, src/models.py:Track.from_dict, src/models.py:TrackState.from_dict, src/models.py:load_mcp_config, src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
   """
   return cls(
    ai_input=data.get("ai_input", ""),
@@ -69,7 +69,7 @@ class HistoryEntry:
 class HistoryManager:
  def __init__(self, max_capacity: int = 100):
   """
-  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+    [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   self.max_capacity = max_capacity
   self._undo_stack: typing.List[HistoryEntry] = []
@@ -78,9 +78,10 @@ class HistoryManager:
  def push(self, state: typing.Any, description: str) -> None:
   """
   
-    Pushes a new state to the undo stack and clears the redo stack.
-    If the undo stack exceeds max_capacity, the oldest state is removed.
-    [C: tests/test_history.py:test_jump_to_undo, tests/test_history.py:test_max_capacity, tests/test_history.py:test_push_state, tests/test_history.py:test_redo_cleared_on_push, tests/test_history.py:test_undo_redo]
+    
+      Pushes a new state to the undo stack and clears the redo stack.
+      If the undo stack exceeds max_capacity, the oldest state is removed.
+    [C: tests/test_history.py:test_jump_to_undo, tests/test_history.py:test_max_capacity, tests/test_history.py:test_push_state, tests/test_history.py:test_redo_cleared_on_push, tests/test_history.py:test_undo_redo, tests/test_history_manager.py:TestHistoryManager.test_get_history_returns_descriptions, tests/test_history_manager.py:TestHistoryManager.test_jump_to_undo, tests/test_history_manager.py:TestHistoryManager.test_push_and_undo, tests/test_history_manager.py:TestHistoryManager.test_push_clears_redo_stack, tests/test_history_manager.py:TestHistoryManager.test_undo_and_redo]
   """
   entry = HistoryEntry(state=state, description=description)
   self._undo_stack.append(entry)
@@ -91,9 +92,10 @@ class HistoryManager:
  def undo(self, current_state: typing.Any, current_description: str = "Current State") -> typing.Optional[HistoryEntry]:
   """
   
-    Undoes the last action by moving the current_state to the redo stack
-    and returning the top of the undo stack.
-    [C: tests/test_history.py:test_redo_cleared_on_push, tests/test_history.py:test_undo_redo]
+    
+      Undoes the last action by moving the current_state to the redo stack
+      and returning the top of the undo stack.
+    [C: tests/test_history.py:test_redo_cleared_on_push, tests/test_history.py:test_undo_redo, tests/test_history_manager.py:TestHistoryManager.test_push_and_undo, tests/test_history_manager.py:TestHistoryManager.test_push_clears_redo_stack, tests/test_history_manager.py:TestHistoryManager.test_undo_and_redo, tests/test_history_manager.py:TestHistoryManager.test_undo_no_history_returns_none]
   """
   if not self._undo_stack:
    return None
@@ -105,9 +107,10 @@ class HistoryManager:
  def redo(self, current_state: typing.Any, current_description: str = "Current State") -> typing.Optional[HistoryEntry]:
   """
   
-    Redoes the last undone action by moving the current_state to the undo stack
-    and returning the top of the redo stack.
-    [C: tests/test_history.py:test_undo_redo]
+    
+      Redoes the last undone action by moving the current_state to the undo stack
+      and returning the top of the redo stack.
+    [C: tests/test_history.py:test_undo_redo, tests/test_history_manager.py:TestHistoryManager.test_redo_no_history_returns_none, tests/test_history_manager.py:TestHistoryManager.test_undo_and_redo]
   """
   if not self._redo_stack:
    return None
@@ -126,8 +129,9 @@ class HistoryManager:
 
  def get_history(self) -> typing.List[typing.Dict[str, typing.Any]]:
   """
-  Returns a list of descriptions and timestamps for the undo stack.
-    [C: tests/test_history.py:test_initial_state, tests/test_history.py:test_push_state]
+  
+    Returns a list of descriptions and timestamps for the undo stack.
+    [C: tests/test_history.py:test_initial_state, tests/test_history.py:test_push_state, tests/test_history_manager.py:TestHistoryManager.test_get_history_returns_descriptions]
   """
   return [
    {"description": e.description, "timestamp": e.timestamp}
@@ -137,9 +141,10 @@ class HistoryManager:
  def jump_to_undo(self, index: int, current_state: typing.Any, current_description: str = "Before Jump") -> typing.Optional[HistoryEntry]:
   """
   
-    Jumps to a specific state in the undo stack by moving subsequent states
-    and the current_state to the redo stack.
-    [C: tests/test_history.py:test_jump_to_undo]
+    
+      Jumps to a specific state in the undo stack by moving subsequent states
+      and the current_state to the redo stack.
+    [C: tests/test_history.py:test_jump_to_undo, tests/test_history_manager.py:TestHistoryManager.test_jump_to_undo]
   """
   if index < 0 or index >= len(self._undo_stack):
    return None
diff --git a/src/imgui_scopes.py b/src/imgui_scopes.py
index 48bac03..227e349 100644
--- a/src/imgui_scopes.py
+++ b/src/imgui_scopes.py
@@ -5,6 +5,9 @@ from imgui_bundle import imgui_node_editor
 def child(id_str: str, size_x: float = 0, size_y: float = 0, flags: int = 0): return _ScopeChild(id_str, size_x, size_y, flags)
 class _ScopeChild:
  def __init__(self, id_str: str, size_x: float | imgui.ImVec2, size_y: float, flags: int):
+  """
+  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+  """
   self._id = id_str
   # Check if size_x is likely an ImVec2 without using isinstance (which breaks with mocks)
   if hasattr(size_x, 'x') and hasattr(size_x, 'y'):
@@ -30,6 +33,9 @@ class _ScopeGroup:
 def id(str_id: str): return _ScopeId(str_id)
 class _ScopeId:
  def __init__(self, str_id: str):
+  """
+  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+  """
   self._id = str_id
  def __enter__(self):
   imgui.push_id(self._id)
@@ -40,6 +46,9 @@ class _ScopeId:
 def menu(label: str): return _ScopeMenu(label)
 class _ScopeMenu:
  def __init__(self, label: str):
+  """
+  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+  """
   self._label = label
   self._active = False
  def __enter__(self):
@@ -53,6 +62,9 @@ class _ScopeMenu:
 def menu_bar(): return _ScopeMenuBar()
 class _ScopeMenuBar:
  def __init__(self):
+  """
+  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+  """
   self._active = False
  def __enter__(self):
   self._active = imgui.begin_menu_bar()
@@ -65,6 +77,9 @@ class _ScopeMenuBar:
 def node(name: str): return _ScopeNode(name)
 class _ScopeNode:
  def __init__(self, name: str):
+  """
+  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+  """
   self._name = name
  def __enter__(self):
   return imgui_node_editor.begin(self._name)
@@ -75,6 +90,9 @@ class _ScopeNode:
 def popup(id_str: str): return _ScopePopup(id_str)
 class _ScopePopup:
  def __init__(self, id_str: str):
+  """
+  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+  """
   self._id = id_str
   self._active = False
  def __enter__(self):
@@ -88,6 +106,9 @@ class _ScopePopup:
 def popup_modal(name: str, visible: bool = True, flags: int = 0): return _ScopePopupModal(name, visible, flags)
 class _ScopePopupModal:
  def __init__(self, name: str, visible: bool, flags: int):
+  """
+  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+  """
   self._name = name
   self._visible = visible
   self._flags = flags
@@ -104,6 +125,9 @@ class _ScopePopupModal:
 def style_color(col: int, val: Any): return _ScopeStyleColor(col, val)
 class _ScopeStyleColor:
  def __init__(self, col: int, val: Any):
+  """
+  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+  """
   self._col = col
   self._val = val
  def __enter__(self):
@@ -115,6 +139,9 @@ class _ScopeStyleColor:
 def style_var(var: int, val: Any): return _ScopeStyleVar(var, val)
 class _ScopeStyleVar:
  def __init__(self, var: int, val: Any):
+  """
+  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+  """
   self._var = var
   self._val = val
  def __enter__(self):
@@ -126,6 +153,9 @@ class _ScopeStyleVar:
 def table(name: str, columns: int, flags: int = 0): return _ScopeTable(name, columns, flags)
 class _ScopeTable:
  def __init__(self, name: str, columns: int, flags: int):
+  """
+  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+  """
   self._name = name
   self._columns = columns
   self._flags = flags
@@ -141,6 +171,9 @@ class _ScopeTable:
 def tab_bar(id_str: str, flags: int = 0): return _ScopeTabBar(id_str, flags)
 class _ScopeTabBar:
  def __init__(self, id_str: str, flags: int):
+  """
+  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+  """
   self._id = id_str
   self._flags = flags
   self._active = False
@@ -155,6 +188,9 @@ class _ScopeTabBar:
 def tab_item(label: str, flags: int = 0): return _ScopeTabItem(label, flags)
 class _ScopeTabItem:
  def __init__(self, label: str, flags: int):
+  """
+  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+  """
   self._label = label
   self._flags = flags
   self._expanded = False
@@ -170,6 +206,9 @@ class _ScopeTabItem:
 def text_wrap(wrap_pos: float = 0.0): return _ScopeTextWrap(wrap_pos)
 class _ScopeTextWrap:
  def __init__(self, wrap_pos: float):
+  """
+  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+  """
   self._wrap_pos = wrap_pos
  def __enter__(self):
   imgui.push_text_wrap_pos(self._wrap_pos)
@@ -188,6 +227,9 @@ class _ScopeTooltip:
 def tree_node_ex(label: str, flags: int = 0): return _ScopeTreeNodeEx(label, flags)
 class _ScopeTreeNodeEx:
  def __init__(self, label: str, flags: int):
+  """
+  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+  """
   self._label = label
   self._flags = flags
   self._opened = False
@@ -202,6 +244,9 @@ class _ScopeTreeNodeEx:
 def window(name: str, visible: bool = True, flags: int = 0): return _ScopeWindow(name, visible, flags)
 class _ScopeWindow:
  def __init__(self, name: str, visible: bool, flags: int):
+  """
+  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+  """
   self._name = name
   self._visible = visible
   self._flags = flags
@@ -211,4 +256,4 @@ class _ScopeWindow:
   return self._result
  def __exit__(self, *args):
   imgui.end()
-  return False
+  return False
\ No newline at end of file
diff --git a/src/log_pruner.py b/src/log_pruner.py
index 8be1a1f..a5f35ca 100644
--- a/src/log_pruner.py
+++ b/src/log_pruner.py
@@ -8,19 +8,21 @@ from src.log_registry import LogRegistry
 class LogPruner:
  """
  
-     Handles the automated deletion of old and insignificant session logs.
-     Ensures that only whitelisted or significant sessions (based on size/content) 
-     are preserved long-term.
+  
+      Handles the automated deletion of old and insignificant session logs.
+      Ensures that only whitelisted or significant sessions (based on size/content) 
+      are preserved long-term.
  """
 
  def __init__(self, log_registry: LogRegistry, logs_dir: str) -> None:
   """
   
-          Initializes the LogPruner.
-  
-          Args:
-              log_registry: An instance of LogRegistry to check session data.
-              logs_dir: The path to the directory containing session sub-directories.
+    
+            Initializes the LogPruner.
+    
+            Args:
+                log_registry: An instance of LogRegistry to check session data.
+                logs_dir: The path to the directory containing session sub-directories.
     [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   self.log_registry = log_registry
@@ -29,12 +31,13 @@ class LogPruner:
  def prune(self, max_age_days: int = 1, min_size_kb: int = 2) -> None:
   """
   
-          Prunes old and small session directories from the logs directory.
-  
-          Deletes session directories that meet the following criteria:
-          1. The session start time is older than max_age_days.
-          2. The session name is NOT in the whitelist provided by the LogRegistry.
-          3. The total size of all files within the session directory is less than min_size_kb.
+    
+            Prunes old and small session directories from the logs directory.
+    
+            Deletes session directories that meet the following criteria:
+            1. The session start time is older than max_age_days.
+            2. The session name is NOT in the whitelist provided by the LogRegistry.
+            3. The total size of all files within the session directory is less than min_size_kb.
     [C: tests/test_log_pruner.py:test_prune_old_insignificant_logs, tests/test_log_pruning_heuristic.py:TestLogPruningHeuristic.test_prune_handles_relative_paths_starting_with_logs, tests/test_log_pruning_heuristic.py:TestLogPruningHeuristic.test_prune_removes_empty_sessions_regardless_of_age, tests/test_log_pruning_heuristic.py:TestLogPruningHeuristic.test_prune_removes_sessions_without_metadata_regardless_of_age, tests/test_logging_e2e.py:test_logging_e2e]
   """
   now = datetime.now()
@@ -119,4 +122,4 @@ class LogPruner:
     except OSError as e:
      sys.stderr.write(f"[LogPruner] Error removing {resolved_path}: {e}\n")
   
-  self.log_registry.save_registry()
+  self.log_registry.save_registry()
\ No newline at end of file
diff --git a/src/log_registry.py b/src/log_registry.py
index 81ce8c4..93b032a 100644
--- a/src/log_registry.py
+++ b/src/log_registry.py
@@ -48,17 +48,19 @@ from typing import Any
 class LogRegistry:
  """
  
-     Manages a persistent registry of session logs using a TOML file.
-     Tracks session paths, start times, whitelisting status, and metadata.
+  
+      Manages a persistent registry of session logs using a TOML file.
+      Tracks session paths, start times, whitelisting status, and metadata.
  """
 
  def __init__(self, registry_path: str) -> None:
   """
   
-          Initializes the LogRegistry with a path to the registry file.
-          
-          Args:
-              registry_path (str): The file path to the TOML registry.
+    
+            Initializes the LogRegistry with a path to the registry file.
+            
+            Args:
+                registry_path (str): The file path to the TOML registry.
     [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   self.registry_path = registry_path
@@ -73,8 +75,9 @@ class LogRegistry:
  def load_registry(self) -> None:
   """
   
-          Loads the registry data from the TOML file into memory.
-          Handles date/time conversions from TOML-native formats to strings for consistency.
+    
+            Loads the registry data from the TOML file into memory.
+            Handles date/time conversions from TOML-native formats to strings for consistency.
   """
   if os.path.exists(self.registry_path):
    try:
@@ -102,8 +105,9 @@ class LogRegistry:
  def save_registry(self) -> None:
   """
   
-          Serializes and saves the current registry data to the TOML file.
-          Converts internal datetime objects to ISO format strings for compatibility.
+    
+            Serializes and saves the current registry data to the TOML file.
+            Converts internal datetime objects to ISO format strings for compatibility.
     [C: tests/test_logging_e2e.py:test_logging_e2e]
   """
   try:
@@ -137,12 +141,13 @@ class LogRegistry:
  def register_session(self, session_id: str, path: str, start_time: datetime | str) -> None:
   """
   
-          Registers a new session in the registry.
-  
-          Args:
-              session_id (str): Unique identifier for the session.
-              path (str): File path to the session's log directory.
-              start_time (datetime|str): The timestamp when the session started.
+    
+            Registers a new session in the registry.
+    
+            Args:
+                session_id (str): Unique identifier for the session.
+                path (str): File path to the session's log directory.
+                start_time (datetime|str): The timestamp when the session started.
     [C: src/session_logger.py:open_session, tests/test_auto_whitelist.py:test_auto_whitelist_keywords, tests/test_auto_whitelist.py:test_auto_whitelist_large_size, tests/test_auto_whitelist.py:test_auto_whitelist_message_count, tests/test_auto_whitelist.py:test_no_auto_whitelist_insignificant, tests/test_log_pruner.py:test_prune_old_insignificant_logs, tests/test_log_pruning_heuristic.py:TestLogPruningHeuristic.test_get_old_non_whitelisted_sessions_includes_empty_sessions, tests/test_log_pruning_heuristic.py:TestLogPruningHeuristic.test_get_old_non_whitelisted_sessions_includes_sessions_without_metadata, tests/test_log_pruning_heuristic.py:TestLogPruningHeuristic.test_prune_handles_relative_paths_starting_with_logs, tests/test_log_pruning_heuristic.py:TestLogPruningHeuristic.test_prune_removes_empty_sessions_regardless_of_age, tests/test_log_pruning_heuristic.py:TestLogPruningHeuristic.test_prune_removes_sessions_without_metadata_regardless_of_age, tests/test_log_registry.py:TestLogRegistry.test_get_old_non_whitelisted_sessions, tests/test_log_registry.py:TestLogRegistry.test_is_session_whitelisted, tests/test_log_registry.py:TestLogRegistry.test_register_session, tests/test_log_registry.py:TestLogRegistry.test_update_session_metadata, tests/test_logging_e2e.py:test_logging_e2e]
   """
   if session_id in self.data:
@@ -163,15 +168,16 @@ class LogRegistry:
  def update_session_metadata(self, session_id: str, message_count: int, errors: int, size_kb: int, whitelisted: bool, reason: str) -> None:
   """
   
-          Updates metadata fields for an existing session.
-  
-          Args:
-              session_id (str): Unique identifier for the session.
-              message_count (int): Total number of messages in the session.
-              errors (int): Number of errors identified in logs.
-              size_kb (int): Total size of the session logs in kilobytes.
-              whitelisted (bool): Whether the session should be protected from pruning.
-              reason (str): Explanation for the current whitelisting status.
+    
+            Updates metadata fields for an existing session.
+    
+            Args:
+                session_id (str): Unique identifier for the session.
+                message_count (int): Total number of messages in the session.
+                errors (int): Number of errors identified in logs.
+                size_kb (int): Total size of the session logs in kilobytes.
+                whitelisted (bool): Whether the session should be protected from pruning.
+                reason (str): Explanation for the current whitelisting status.
     [C: tests/test_auto_whitelist.py:test_auto_whitelist_large_size, tests/test_auto_whitelist.py:test_auto_whitelist_message_count, tests/test_log_pruning_heuristic.py:TestLogPruningHeuristic.test_get_old_non_whitelisted_sessions_includes_empty_sessions, tests/test_log_pruning_heuristic.py:TestLogPruningHeuristic.test_prune_removes_empty_sessions_regardless_of_age, tests/test_log_registry.py:TestLogRegistry.test_get_old_non_whitelisted_sessions, tests/test_log_registry.py:TestLogRegistry.test_is_session_whitelisted, tests/test_log_registry.py:TestLogRegistry.test_update_session_metadata]
   """
   if session_id not in self.data:
@@ -197,13 +203,14 @@ class LogRegistry:
  def is_session_whitelisted(self, session_id: str) -> bool:
   """
   
-          Checks if a specific session is marked as whitelisted.
-  
-          Args:
-              session_id (str): Unique identifier for the session.
-  
-          Returns:
-              bool: True if whitelisted, False otherwise.
+    
+            Checks if a specific session is marked as whitelisted.
+    
+            Args:
+                session_id (str): Unique identifier for the session.
+    
+            Returns:
+                bool: True if whitelisted, False otherwise.
     [C: tests/test_auto_whitelist.py:test_auto_whitelist_keywords, tests/test_auto_whitelist.py:test_auto_whitelist_large_size, tests/test_auto_whitelist.py:test_auto_whitelist_message_count, tests/test_auto_whitelist.py:test_no_auto_whitelist_insignificant, tests/test_log_registry.py:TestLogRegistry.test_is_session_whitelisted, tests/test_logging_e2e.py:test_logging_e2e]
   """
   session_data = self.data.get(session_id)
@@ -215,12 +222,13 @@ class LogRegistry:
  def update_auto_whitelist_status(self, session_id: str) -> None:
   """
   
-          Analyzes session logs and updates whitelisting status based on heuristics.
-          Sessions are automatically whitelisted if they contain error keywords, 
-          have a high message count, or exceed a size threshold.
-  
-          Args:
-              session_id (str): Unique identifier for the session to analyze.
+    
+            Analyzes session logs and updates whitelisting status based on heuristics.
+            Sessions are automatically whitelisted if they contain error keywords, 
+            have a high message count, or exceed a size threshold.
+    
+            Args:
+                session_id (str): Unique identifier for the session to analyze.
     [C: src/session_logger.py:close_session]
   """
   if session_id not in self.data:
@@ -275,15 +283,16 @@ class LogRegistry:
  def get_old_non_whitelisted_sessions(self, cutoff_datetime: datetime) -> list[dict[str, Any]]:
   """
   
-          Retrieves a list of sessions that are older than a specific cutoff time 
-          and are not marked as whitelisted.
-          Also includes non-whitelisted sessions that are empty (message_count=0 or size_kb=0).
-  
-          Args:
-              cutoff_datetime (datetime): The threshold time for identifying old sessions.
-  
-          Returns:
-              list: A list of dictionaries containing session details (id, path, start_time).
+    
+            Retrieves a list of sessions that are older than a specific cutoff time 
+            and are not marked as whitelisted.
+            Also includes non-whitelisted sessions that are empty (message_count=0 or size_kb=0).
+    
+            Args:
+                cutoff_datetime (datetime): The threshold time for identifying old sessions.
+    
+            Returns:
+                list: A list of dictionaries containing session details (id, path, start_time).
     [C: tests/test_log_pruner.py:test_prune_old_insignificant_logs, tests/test_log_pruning_heuristic.py:TestLogPruningHeuristic.test_get_old_non_whitelisted_sessions_includes_empty_sessions, tests/test_log_pruning_heuristic.py:TestLogPruningHeuristic.test_get_old_non_whitelisted_sessions_includes_sessions_without_metadata, tests/test_log_registry.py:TestLogRegistry.test_get_old_non_whitelisted_sessions]
   """
   old_sessions = []
@@ -316,4 +325,3 @@ class LogRegistry:
        'start_time': start_time_raw
       })
   return old_sessions
-
diff --git a/src/markdown_helper.py b/src/markdown_helper.py
index e936b0d..d4cb460 100644
--- a/src/markdown_helper.py
+++ b/src/markdown_helper.py
@@ -10,12 +10,13 @@ from typing import Optional, Dict, Callable
 class MarkdownRenderer:
  """
  
-     Hybrid Markdown renderer that uses imgui_md for text/headers
-     and ImGuiColorTextEdit for syntax-highlighted code blocks.
+  
+      Hybrid Markdown renderer that uses imgui_md for text/headers
+      and ImGuiColorTextEdit for syntax-highlighted code blocks.
  """
  def __init__(self):
   """
-  [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
+    [C: src/mcp_client.py:_DDGParser.__init__, src/mcp_client.py:_TextExtractor.__init__]
   """
   self.options = imgui_md.MarkdownOptions()
   # Base path for fonts (Inter family)
@@ -67,8 +68,9 @@ class MarkdownRenderer:
 
  def render(self, text: str, context_id: str = "default") -> None:
   """
-  Render Markdown text with code block interception.
-    [C: tests/test_theme_nerv_alert.py:test_alert_pulsing_render_active, tests/test_theme_nerv_alert.py:test_alert_pulsing_render_inactive, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_alert_pulsing_render, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_disabled, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_render]
+  
+    Render Markdown text with code block interception.
+    [C: src/theme_2.py:render_post_fx, tests/test_theme_nerv_alert.py:test_alert_pulsing_render_active, tests/test_theme_nerv_alert.py:test_alert_pulsing_render_inactive, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_alert_pulsing_render, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_disabled, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_render]
   """
   if not text:
    return
@@ -167,7 +169,7 @@ def get_renderer() -> MarkdownRenderer:
 
 def render(text: str, context_id: str = "default") -> None:
  """
- [C: tests/test_theme_nerv_alert.py:test_alert_pulsing_render_active, tests/test_theme_nerv_alert.py:test_alert_pulsing_render_inactive, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_alert_pulsing_render, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_disabled, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_render]
+  [C: src/theme_2.py:render_post_fx, tests/test_theme_nerv_alert.py:test_alert_pulsing_render_active, tests/test_theme_nerv_alert.py:test_alert_pulsing_render_inactive, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_alert_pulsing_render, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_disabled, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_render]
  """
  get_renderer().render(text, context_id)
 
@@ -175,4 +177,4 @@ def render_unindented(text: str) -> None:
  get_renderer().render_unindented(text)
 
 def render_code(code: str, lang: str = "", context_id: str = "default", block_idx: int = 0) -> None:
- get_renderer().render_code(code, lang, context_id, block_idx)
+ get_renderer().render_code(code, lang, context_id, block_idx)
\ No newline at end of file
diff --git a/src/mcp_client.py b/src/mcp_client.py
index d45e0f0..5f46f30 100644
--- a/src/mcp_client.py
+++ b/src/mcp_client.py
@@ -102,12 +102,13 @@ perf_monitor_callback: Optional[Callable[[], dict[str, Any]]] = None
 def configure(file_items: list[dict[str, Any]], extra_base_dirs: list[str] | None = None) -> None:
  """
  
-     Build the allowlist from aggregate file_items.
-     Called by ai_client before each send so the list reflects the current project.
- 
-     file_items   : list of dicts from aggregate.build_file_items()
-     extra_base_dirs : additional directory roots to allow traversal of
-  [C: tests/conftest.py:reset_ai_client, tests/test_arch_boundary_phase1.py:TestArchBoundaryPhase1.test_mcp_client_whitelist_enforcement, tests/test_mcp_client_beads.py:test_bd_mcp_tools]
+  
+      Build the allowlist from aggregate file_items.
+      Called by ai_client before each send so the list reflects the current project.
+  
+      file_items   : list of dicts from aggregate.build_file_items()
+      extra_base_dirs : additional directory roots to allow traversal of
+  [C: tests/conftest.py:reset_ai_client, tests/test_arch_boundary_phase1.py:TestArchBoundaryPhase1.test_mcp_client_whitelist_enforcement, tests/test_mcp_client_beads.py:test_bd_mcp_tools, tests/test_py_struct_tools.py:test_mcp_dispatch_errors, tests/test_py_struct_tools.py:test_mcp_dispatch_integration]
  """
  global _allowed_paths, _base_dirs, _primary_base_dir
  _allowed_paths = set()
@@ -131,14 +132,15 @@ def configure(file_items: list[dict[str, Any]], extra_base_dirs: list[str] | Non
 def _is_allowed(path: Path) -> bool:
  """
  
-     Return True if `path` is within the allowlist.
-     A path is allowed if:
-       - it is explicitly in _allowed_paths, OR
-       - it is contained within (or equal to) one of the _base_dirs
-     All paths are resolved (follows symlinks) before comparison to prevent
-     symlink-based path traversal.
-     
-     CRITICAL: Blacklisted files (history) are NEVER allowed.
+  
+      Return True if `path` is within the allowlist.
+      A path is allowed if:
+        - it is explicitly in _allowed_paths, OR
+        - it is contained within (or equal to) one of the _base_dirs
+      All paths are resolved (follows symlinks) before comparison to prevent
+      symlink-based path traversal.
+      
+      CRITICAL: Blacklisted files (history) are NEVER allowed.
   [C: tests/test_arch_boundary_phase1.py:TestArchBoundaryPhase1.test_mcp_client_whitelist_enforcement, tests/test_history_management.py:test_mcp_blacklist]
  """
  from src.paths import get_config_path
@@ -180,8 +182,9 @@ def _is_allowed(path: Path) -> bool:
 def _resolve_and_check(raw_path: str) -> tuple[Path | None, str]:
  """
  
-     Resolve raw_path and verify it passes the allowlist check.
-     Returns (resolved_path, error_string).  error_string is empty on success.
+  
+      Resolve raw_path and verify it passes the allowlist check.
+      Returns (resolved_path, error_string).  error_string is empty on success.
  """
  try:
   p = Path(raw_path)
@@ -243,8 +246,9 @@ def list_directory(path: str) -> str:
 def search_files(path: str, pattern: str) -> str:
  """
  
-     Search for files matching a glob pattern within path.
-     pattern examples: '*.py', '**/*.toml', 'src/**/*.rs'
+  
+      Search for files matching a glob pattern within path.
+      pattern examples: '*.py', '**/*.toml', 'src/**/*.rs'
  """
  p, err = _resolve_and_check(path)
  if err or p is None:
@@ -274,9 +278,10 @@ def search_files(path: str, pattern: str) -> str:
 def get_file_summary(path: str) -> str:
  """
  
-     Return the heuristic summary for a file (same as the initial context block).
-     For .py files: imports, classes, methods, functions, constants.
-     For .toml: table keys. For .md: headings. Others: line count + preview.
+  
+      Return the heuristic summary for a file (same as the initial context block).
+      For .py files: imports, classes, methods, functions, constants.
+      For .toml: table keys. For .md: headings. Others: line count + preview.
  """
  p, err = _resolve_and_check(path)
  if err or p is None:
@@ -294,7 +299,8 @@ def get_file_summary(path: str) -> str:
 def py_get_skeleton(path: str) -> str:
  """
  
-     Returns a skeleton of a Python file (preserving docstrings, stripping function bodies).
+  
+      Returns a skeleton of a Python file (preserving docstrings, stripping function bodies).
  """
  p, err = _resolve_and_check(path)
  if err:
@@ -314,7 +320,8 @@ def py_get_skeleton(path: str) -> str:
 
 def ts_c_get_skeleton(path: str) -> str:
  """
- Returns a skeleton of a C file.
+ 
+  Returns a skeleton of a C file.
   [C: tests/test_ts_c_tools.py:test_ts_c_get_skeleton]
  """
  p, err = _resolve_and_check(path)
@@ -331,8 +338,9 @@ def ts_c_get_skeleton(path: str) -> str:
 
 def ts_cpp_get_skeleton(path: str) -> str:
  """
- Returns a skeleton of a C++ file.
-  [C: tests/test_ts_cpp_tools.py:test_exhaustive_cpp_samples, tests/test_ts_cpp_tools.py:test_exhaustive_gencpp_samples, tests/test_ts_cpp_tools.py:test_ts_cpp_get_skeleton]
+ 
+  Returns a skeleton of a C++ file.
+  [C: tests/test_gencpp_full_suite.py:test_gencpp_full_suite, tests/test_ts_cpp_tools.py:test_exhaustive_cpp_samples, tests/test_ts_cpp_tools.py:test_exhaustive_gencpp_samples, tests/test_ts_cpp_tools.py:test_ts_cpp_get_skeleton]
  """
  p, err = _resolve_and_check(path)
  if err: return err
@@ -349,7 +357,8 @@ def ts_cpp_get_skeleton(path: str) -> str:
 def py_get_code_outline(path: str) -> str:
  """
  
-     Returns a hierarchical outline of a code file (classes, functions, methods with line ranges).
+  
+      Returns a hierarchical outline of a code file (classes, functions, methods with line ranges).
  """
  p, err = _resolve_and_check(path)
  if err:
@@ -367,7 +376,8 @@ def py_get_code_outline(path: str) -> str:
 
 def ts_c_get_code_outline(path: str) -> str:
  """
- Returns a hierarchical outline of a C file.
+ 
+  Returns a hierarchical outline of a C file.
   [C: tests/test_ts_c_tools.py:test_ts_c_get_code_outline]
  """
  p, err = _resolve_and_check(path)
@@ -384,8 +394,9 @@ def ts_c_get_code_outline(path: str) -> str:
 
 def ts_cpp_get_code_outline(path: str) -> str:
  """
- Returns a hierarchical outline of a C++ file.
-  [C: tests/test_ts_cpp_tools.py:test_exhaustive_cpp_samples, tests/test_ts_cpp_tools.py:test_exhaustive_gencpp_samples, tests/test_ts_cpp_tools.py:test_ts_cpp_get_code_outline]
+ 
+  Returns a hierarchical outline of a C++ file.
+  [C: tests/test_gencpp_full_suite.py:test_gencpp_full_suite, tests/test_ts_cpp_tools.py:test_exhaustive_cpp_samples, tests/test_ts_cpp_tools.py:test_exhaustive_gencpp_samples, tests/test_ts_cpp_tools.py:test_ts_cpp_get_code_outline]
  """
  p, err = _resolve_and_check(path)
  if err: return err
@@ -415,8 +426,9 @@ def ts_c_get_definition(path: str, name: str) -> str:
 
 def ts_cpp_get_definition(path: str, name: str) -> str:
  """
- Returns the source code for a specific definition in a C++ file.
-  [C: tests/test_ts_cpp_tools.py:test_exhaustive_cpp_samples, tests/test_ts_cpp_tools.py:test_exhaustive_gencpp_samples, tests/test_ts_cpp_tools.py:test_ts_cpp_update_definition, tests/test_ts_cpp_tools.py:test_ts_cpp_update_definition_gencpp]
+ 
+  Returns the source code for a specific definition in a C++ file.
+  [C: tests/test_ast_masking_core.py:test_ast_masking_gencpp_samples, tests/test_gencpp_full_suite.py:test_gencpp_full_suite, tests/test_ts_cpp_tools.py:test_exhaustive_cpp_samples, tests/test_ts_cpp_tools.py:test_exhaustive_gencpp_samples, tests/test_ts_cpp_tools.py:test_ts_cpp_update_definition, tests/test_ts_cpp_tools.py:test_ts_cpp_update_definition_gencpp]
  """
  p, err = _resolve_and_check(path)
  if err: return err
@@ -478,7 +490,8 @@ def ts_c_update_definition(path: str, name: str, new_content: str) -> str:
 
 def ts_cpp_update_definition(path: str, name: str, new_content: str) -> str:
  """
- Surgically replace the definition of a class or function in a C++ file.
+ 
+  Surgically replace the definition of a class or function in a C++ file.
   [C: tests/test_ts_cpp_tools.py:test_ts_cpp_update_definition, tests/test_ts_cpp_tools.py:test_ts_cpp_update_definition_gencpp]
  """
  p, err = _resolve_and_check(path)
@@ -537,8 +550,9 @@ def set_file_slice(path: str, start_line: int, end_line: int, new_content: str)
 def edit_file(path: str, old_string: str, new_string: str, replace_all: bool = False) -> str:
  """
  
-  Replace exact string match in a file. Preserves indentation and line endings.
-  Drop-in replacement for native edit tool that destroys 1-space indentation.
+  
+   Replace exact string match in a file. Preserves indentation and line endings.
+   Drop-in replacement for native edit tool that destroys 1-space indentation.
  """
  p, err = _resolve_and_check(path)
  if err:
@@ -595,8 +609,9 @@ def _get_symbol_node(tree: ast.AST, name: str) -> Optional[ast.AST]:
 def py_get_symbol_info(path: str, name: str) -> tuple[str, int] | str:
  """
  
-     Returns (source_code, line_number) for a specific class, function, or method definition.
-     If not found, returns an error string.
+  
+      Returns (source_code, line_number) for a specific class, function, or method definition.
+      If not found, returns an error string.
  """
  p, err = _resolve_and_check(path)
  if err:
@@ -622,9 +637,10 @@ def py_get_symbol_info(path: str, name: str) -> tuple[str, int] | str:
 def py_get_definition(path: str, name: str) -> str:
  """
  
-     Returns the source code for a specific class, function, or method definition.
-     path: Path to the code file.
-     name: Name of the definition to retrieve (e.g., 'MyClass', 'my_function', 'MyClass.my_method').
+  
+      Returns the source code for a specific class, function, or method definition.
+      path: Path to the code file.
+      name: Name of the definition to retrieve (e.g., 'MyClass', 'my_function', 'MyClass.my_method').
  """
  p, err = _resolve_and_check(path)
  if err:
@@ -797,9 +813,10 @@ def py_set_var_declaration(path: str, name: str, new_declaration: str) -> str:
 def get_git_diff(path: str, base_rev: str = "HEAD", head_rev: str = "") -> str:
  """
  
-     Returns the git diff for a file or directory.
-     base_rev: The base revision (default: HEAD)
-     head_rev: The head revision (optional)
+  
+      Returns the git diff for a file or directory.
+      base_rev: The base revision (default: HEAD)
+      head_rev: The head revision (optional)
  """
  p, err = _resolve_and_check(path)
  if err:
@@ -1151,7 +1168,8 @@ def fetch_url(url: str) -> str:
 
 def get_ui_performance() -> str:
  """
- Returns current UI performance metrics (FPS, Frame Time, CPU, Input Lag).
+ 
+  Returns current UI performance metrics (FPS, Frame Time, CPU, Input Lag).
   [C: tests/test_mcp_perf_tool.py:test_mcp_perf_tool_retrieval]
  """
  if perf_monitor_callback is None:
@@ -1183,7 +1201,7 @@ class StdioMCPServer:
 
  async def start(self):
   """
-  [C: src/multi_agent_conductor.py:WorkerPool.spawn, src/performance_monitor.py:PerformanceMonitor.__init__, tests/test_ai_client_concurrency.py:test_ai_client_tier_isolation, tests/test_conductor_engine_abort.py:test_kill_worker_sets_abort_and_joins_thread, tests/test_conductor_engine_v2.py:side_effect, tests/test_spawn_interception_v2.py:test_confirm_spawn_pushed_to_queue, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
+    [C: src/multi_agent_conductor.py:WorkerPool.spawn, src/performance_monitor.py:PerformanceMonitor.__init__, tests/test_ai_client_concurrency.py:test_ai_client_tier_isolation, tests/test_conductor_engine_abort.py:test_kill_worker_sets_abort_and_joins_thread, tests/test_conductor_engine_v2.py:side_effect, tests/test_spawn_interception_v2.py:test_confirm_spawn_pushed_to_queue, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
   """
   self.status = 'starting'
   self.proc = await asyncio.create_subprocess_exec(
@@ -1199,7 +1217,7 @@ class StdioMCPServer:
 
  async def stop(self):
   """
-  [C: tests/test_performance_monitor.py:test_perf_monitor_basic_timing, tests/test_performance_monitor.py:test_perf_monitor_component_timing, tests/test_performance_monitor.py:test_perf_monitor_extended_metrics, tests/test_performance_monitor.py:test_perf_monitor_scope_context_manager, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
+    [C: tests/test_performance_monitor.py:test_perf_monitor_basic_timing, tests/test_performance_monitor.py:test_perf_monitor_component_timing, tests/test_performance_monitor.py:test_perf_monitor_extended_metrics, tests/test_performance_monitor.py:test_perf_monitor_scope_context_manager, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
   """
   if self.proc:
    try:
@@ -1262,7 +1280,8 @@ class ExternalMCPManager:
 
  async def add_server(self, config: models.MCPServerConfig):
   """
-  Add and start a new MCP server from a configuration object.
+  
+    Add and start a new MCP server from a configuration object.
     [C: tests/test_external_mcp.py:test_external_mcp_real_process, tests/test_external_mcp.py:test_get_tool_schemas_includes_external]
   """
   if config.url:
@@ -1274,7 +1293,8 @@ class ExternalMCPManager:
 
  async def stop_all(self):
   """
-  Stop all managed MCP servers and clear the registry.
+  
+    Stop all managed MCP servers and clear the registry.
     [C: tests/test_external_mcp.py:test_external_mcp_real_process, tests/test_external_mcp.py:test_get_tool_schemas_includes_external, tests/test_external_mcp_e2e.py:test_external_mcp_e2e_refresh_and_call]
   """
   for server in self.servers.values():
@@ -1283,7 +1303,8 @@ class ExternalMCPManager:
 
  def get_all_tools(self) -> dict:
   """
-  Retrieve a dictionary of all tools available across all managed servers.
+  
+    Retrieve a dictionary of all tools available across all managed servers.
     [C: tests/test_external_mcp.py:test_external_mcp_real_process, tests/test_external_mcp_e2e.py:test_external_mcp_e2e_refresh_and_call]
   """
   all_tools = {}
@@ -1298,7 +1319,8 @@ class ExternalMCPManager:
 
  async def async_dispatch(self, tool_name: str, tool_input: dict) -> str:
   """
-  Dispatch a tool call to the appropriate external MCP server asynchronously.
+  
+    Dispatch a tool call to the appropriate external MCP server asynchronously.
     [C: src/rag_engine.py:RAGEngine._async_search_mcp, tests/test_external_mcp.py:test_external_mcp_real_process]
   """
   for server in self.servers.values():
@@ -1310,7 +1332,8 @@ _external_mcp_manager = ExternalMCPManager()
 
 def get_external_mcp_manager() -> ExternalMCPManager:
  """
- Retrieve the global ExternalMCPManager instance.
+ 
+  Retrieve the global ExternalMCPManager instance.
   [C: tests/test_external_mcp.py:test_get_tool_schemas_includes_external, tests/test_external_mcp_e2e.py:test_external_mcp_e2e_refresh_and_call]
  """
  global _external_mcp_manager
@@ -1319,8 +1342,9 @@ def get_external_mcp_manager() -> ExternalMCPManager:
 def dispatch(tool_name: str, tool_input: dict[str, Any]) -> str:
  """
  
-     Dispatch an MCP tool call by name.  Returns the result as a string.
-  [C: tests/test_gemini_cli_edge_cases.py:test_gemini_cli_parameter_resilience, tests/test_mcp_client_beads.py:test_bd_mcp_tools, tests/test_mcp_ts_integration.py:test_ts_c_get_code_outline_dispatch, tests/test_mcp_ts_integration.py:test_ts_c_get_definition_dispatch, tests/test_mcp_ts_integration.py:test_ts_c_get_signature_dispatch, tests/test_mcp_ts_integration.py:test_ts_c_get_skeleton_dispatch, tests/test_mcp_ts_integration.py:test_ts_c_update_definition_dispatch, tests/test_mcp_ts_integration.py:test_ts_cpp_get_code_outline_dispatch, tests/test_mcp_ts_integration.py:test_ts_cpp_get_definition_dispatch, tests/test_mcp_ts_integration.py:test_ts_cpp_get_signature_dispatch, tests/test_mcp_ts_integration.py:test_ts_cpp_get_skeleton_dispatch, tests/test_mcp_ts_integration.py:test_ts_cpp_update_definition_dispatch]
+  
+      Dispatch an MCP tool call by name.  Returns the result as a string.
+  [C: tests/test_gemini_cli_edge_cases.py:test_gemini_cli_parameter_resilience, tests/test_mcp_client_beads.py:test_bd_mcp_tools, tests/test_mcp_ts_integration.py:test_ts_c_get_code_outline_dispatch, tests/test_mcp_ts_integration.py:test_ts_c_get_definition_dispatch, tests/test_mcp_ts_integration.py:test_ts_c_get_signature_dispatch, tests/test_mcp_ts_integration.py:test_ts_c_get_skeleton_dispatch, tests/test_mcp_ts_integration.py:test_ts_c_update_definition_dispatch, tests/test_mcp_ts_integration.py:test_ts_cpp_get_code_outline_dispatch, tests/test_mcp_ts_integration.py:test_ts_cpp_get_definition_dispatch, tests/test_mcp_ts_integration.py:test_ts_cpp_get_signature_dispatch, tests/test_mcp_ts_integration.py:test_ts_cpp_get_skeleton_dispatch, tests/test_mcp_ts_integration.py:test_ts_cpp_update_definition_dispatch, tests/test_py_struct_tools.py:test_mcp_dispatch_errors, tests/test_py_struct_tools.py:test_mcp_dispatch_integration]
  """
  # Handle aliases
  path = str(tool_input.get("path", tool_input.get("file_path", tool_input.get("dir_path", ""))))
@@ -1476,7 +1500,7 @@ def dispatch(tool_name: str, tool_input: dict[str, Any]) -> str:
 async def async_dispatch(tool_name: str, tool_input: dict[str, Any]) -> str:
  # Check native tools
  """
- [C: src/rag_engine.py:RAGEngine._async_search_mcp, tests/test_external_mcp.py:test_external_mcp_real_process]
+  [C: src/rag_engine.py:RAGEngine._async_search_mcp, tests/test_external_mcp.py:test_external_mcp_real_process]
  """
  native_names = {t['name'] for t in MCP_TOOL_SPECS}
  if tool_name in native_names:
@@ -1492,7 +1516,7 @@ async def async_dispatch(tool_name: str, tool_input: dict[str, Any]) -> str:
 
 def get_tool_schemas() -> list[dict[str, Any]]:
  """
- [C: tests/test_arch_boundary_phase2.py:TestArchBoundaryPhase2.test_mcp_client_dispatch_completeness, tests/test_external_mcp.py:test_get_tool_schemas_includes_external, tests/test_mcp_client_beads.py:test_bd_mcp_tools]
+  [C: tests/test_arch_boundary_phase2.py:TestArchBoundaryPhase2.test_mcp_client_dispatch_completeness, tests/test_external_mcp.py:test_get_tool_schemas_includes_external, tests/test_mcp_client_beads.py:test_bd_mcp_tools]
  """
  res = list(MCP_TOOL_SPECS)
  manager = get_external_mcp_manager()
@@ -2283,4 +2307,4 @@ MCP_TOOL_SPECS: list[dict[str, Any]] = [
  }
 ]
 
-TOOL_NAMES: set[str] = {t['name'] for t in MCP_TOOL_SPECS}
+TOOL_NAMES: set[str] = {t['name'] for t in MCP_TOOL_SPECS}
\ No newline at end of file
diff --git a/src/models.py b/src/models.py
index bd78a59..0d0b2b4 100644
--- a/src/models.py
+++ b/src/models.py
@@ -154,7 +154,7 @@ def _clean_nones(data: Any) -> Any:
 
 def load_config() -> dict[str, Any]:
  """
- [C: src/multi_agent_conductor.py:ConductorEngine.__init__]
+  [C: src/multi_agent_conductor.py:ConductorEngine.__init__]
  """
  with open(CONFIG_PATH, "rb") as f:
   return tomllib.load(f)
@@ -220,10 +220,16 @@ class ThinkingSegment:
  marker: str
 
  def to_dict(self) -> Dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return {"content": self.content, "marker": self.marker}
 
  @classmethod
  def from_dict(cls, data: Dict[str, Any]) -> "ThinkingSegment":
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return cls(content=data["content"], marker=data["marker"])
 
 @dataclass
@@ -245,27 +251,45 @@ class Ticket:
  persona_id: Optional[str] = None
 
  def mark_blocked(self, reason: str) -> None:
+  """
+  [C: src/multi_agent_conductor.py:run_worker_lifecycle, tests/test_mma_models.py:test_ticket_mark_blocked]
+  """
   self.status = "blocked"
   self.blocked_reason = reason
 
  def mark_manual_block(self, reason: str) -> None:
+  """
+  [C: tests/test_manual_block.py:test_clear_manual_block_method, tests/test_manual_block.py:test_mark_manual_block_method]
+  """
   self.status = "blocked"
   self.blocked_reason = f"[MANUAL] {reason}"
   self.manual_block = True
 
  def clear_manual_block(self) -> None:
+  """
+  [C: tests/test_manual_block.py:test_clear_manual_block_method]
+  """
   if self.manual_block:
    self.status = "todo"
    self.blocked_reason = None
    self.manual_block = False
 
  def mark_complete(self) -> None:
+  """
+  [C: src/multi_agent_conductor.py:run_worker_lifecycle, tests/test_conductor_engine_v2.py:do_work, tests/test_mma_models.py:test_ticket_mark_complete, tests/test_mma_models.py:test_track_get_executable_tickets_complex]
+  """
   self.status = "completed"
 
  def get(self, key: str, default: Any = None) -> Any:
+  """
+  [C: simulation/live_walkthrough.py:main, simulation/ping_pong.py:main, simulation/sim_context.py:ContextSimulation.run, simulation/sim_execution.py:ExecutionSimulation.run, simulation/sim_tools.py:ToolsSimulation.run, simulation/user_agent.py:UserSimAgent.generate_response, simulation/workflow_sim.py:WorkflowSimulator.run_discussion_turn_async, simulation/workflow_sim.py:WorkflowSimulator.wait_for_ai_response, src/multi_agent_conductor.py:ConductorEngine.__init__, src/multi_agent_conductor.py:ConductorEngine.kill_worker, src/multi_agent_conductor.py:ConductorEngine.parse_json_tickets, src/multi_agent_conductor.py:ConductorEngine.run, src/multi_agent_conductor.py:clutch_callback, src/multi_agent_conductor.py:confirm_spawn, src/multi_agent_conductor.py:run_worker_lifecycle, src/multi_agent_conductor.py:worker_comms_callback, src/orchestrator_pm.py:generate_tracks, src/orchestrator_pm.py:get_track_history_summary, src/orchestrator_pm.py:module, src/paths.py:_get_project_conductor_dir_from_toml, src/paths.py:get_config_path, src/paths.py:get_global_personas_path, src/paths.py:get_global_presets_path, src/paths.py:get_global_tool_presets_path, src/paths.py:get_global_workspace_profiles_path, src/performance_monitor.py:PerformanceMonitor._get_avg, src/performance_monitor.py:PerformanceMonitor.end_component, src/performance_monitor.py:PerformanceMonitor.get_metrics, src/personas.py:PersonaManager.get_persona_scope, src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.delete_preset, src/presets.py:PresetManager.get_preset_scope, src/presets.py:PresetManager.load_all, src/project_manager.py:branch_discussion, src/project_manager.py:entry_to_str, src/project_manager.py:flat_config, src/project_manager.py:get_all_tracks, src/project_manager.py:load_track_history, src/project_manager.py:migrate_from_legacy_config, src/project_manager.py:promote_take, src/rag_engine.py:RAGEngine.get_all_indexed_paths, src/rag_engine.py:RAGEngine.index_file, src/shell_runner.py:_build_subprocess_env, src/shell_runner.py:_load_env_config, src/summarize.py:build_summary_markdown, src/summarize.py:summarise_file, src/summarize.py:summarise_items, src/summary_cache.py:SummaryCache.get_summary, src/synthesis_formatter.py:format_takes_diff, src/theme_2.py:load_from_config, src/tool_bias.py:ToolBiasEngine.apply_semantic_nudges, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/conftest.py:live_gui, tests/mock_gemini_cli.py:main, tests/test_ai_server.py:test_server_outputs_ready_marker, tests/test_ai_settings_layout.py:test_change_provider_via_hook, tests/test_ai_settings_layout.py:test_set_params_via_custom_callback, tests/test_async_tools.py:mocked_async_dispatch, tests/test_auto_switch_sim.py:test_auto_switch_sim, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_allow_decision, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_deny_decision, tests/test_cli_tool_bridge.py:TestCliToolBridge.test_unreachable_hook_server, tests/test_cli_tool_bridge_mapping.py:TestCliToolBridgeMapping.test_mapping_from_api_format, tests/test_conductor_api_hook_integration.py:simulate_conductor_phase_completion, tests/test_conductor_engine_v2.py:mock_open_side_effect, tests/test_conductor_engine_v2.py:mock_send_side_effect, tests/test_external_editor_gui.py:test_button_click_is_received, tests/test_external_editor_gui.py:test_patch_modal_shows_with_configured_editor, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gemini_cli_adapter.py:TestGeminiCliAdapter.test_send_captures_usage_metadata, tests/test_gui2_performance.py:test_performance_benchmarking, tests/test_gui_context_presets.py:test_gui_context_preset_save_load, tests/test_gui_events_v2.py:test_sync_event_queue, tests/test_gui_performance_requirements.py:test_idle_performance_requirements, tests/test_gui_phase4.py:test_delete_ticket_logic, tests/test_gui_stress_performance.py:test_comms_volume_stress_performance, tests/test_gui_text_viewer.py:test_text_viewer_state_update, tests/test_gui_updates.py:test_gui_updates_on_event, tests/test_headless_service.py:TestHeadlessAPI.test_endpoint_no_api_key_configured, tests/test_headless_service.py:TestHeadlessAPI.test_get_context_endpoint, tests/test_headless_service.py:TestHeadlessAPI.test_health_endpoint, tests/test_headless_service.py:TestHeadlessAPI.test_list_sessions_endpoint, tests/test_headless_service.py:TestHeadlessAPI.test_pending_actions_endpoint, tests/test_headless_service.py:TestHeadlessAPI.test_status_endpoint_authorized, tests/test_headless_service.py:TestHeadlessAPI.test_status_endpoint_unauthorized, tests/test_live_gui_integration_v2.py:test_api_gui_state_live, tests/test_live_gui_integration_v2.py:test_user_request_error_handling, tests/test_live_gui_integration_v2.py:test_user_request_integration_flow, tests/test_live_workflow.py:test_full_live_workflow, tests/test_live_workflow.py:wait_for_value, tests/test_log_registry.py:TestLogRegistry.test_register_session, tests/test_log_registry.py:TestLogRegistry.test_update_session_metadata, tests/test_mma_agent_focus_phase3.py:test_comms_log_filter_not_applied_for_prior_session, tests/test_mma_agent_focus_phase3.py:test_comms_log_filter_tier3_only, tests/test_mma_agent_focus_phase3.py:test_tool_log_filter_all, tests/test_mma_agent_focus_phase3.py:test_tool_log_filter_excludes_none_tier, tests/test_mma_agent_focus_phase3.py:test_tool_log_filter_tier3_only, tests/test_mma_approval_indicators.py:_make_app, tests/test_mma_concurrent_tracks_sim.py:test_mma_concurrent_tracks_execution, tests/test_mma_concurrent_tracks_stress_sim.py:_poll_mma_workers, tests/test_mma_concurrent_tracks_stress_sim.py:test_mma_concurrent_tracks_stress, tests/test_mma_dashboard_streams.py:_make_app, tests/test_mma_orchestration_gui.py:test_handle_ai_response_with_stream_id, tests/test_mma_step_mode_sim.py:_poll_mma_status, tests/test_mma_step_mode_sim.py:test_mma_step_mode_approval_flow, tests/test_mock_gemini_cli.py:get_message_content, tests/test_patch_modal_gui.py:test_patch_apply_modal_workflow, tests/test_patch_modal_gui.py:test_patch_modal_appears_on_trigger, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_phase6_engine.py:test_worker_streaming_intermediate, tests/test_phase6_simulation.py:test_ast_inspector_modal_opens, tests/test_phase6_simulation.py:test_batch_operations_shift_click, tests/test_phase6_simulation.py:test_slice_editor_add_remove, tests/test_preset_windows_layout.py:test_api_hook_under_load, tests/test_preset_windows_layout.py:test_preset_windows_opening, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_rag_phase4_final_verify.py:test_phase4_final_verify, tests/test_rag_phase4_stress.py:test_rag_large_codebase_verification_sim, tests/test_saved_presets_sim.py:test_preset_manager_modal, tests/test_saved_presets_sim.py:test_preset_switching, tests/test_selectable_ui.py:test_selectable_label_stability, tests/test_sim_ai_settings.py:side_effect, tests/test_sim_ai_settings.py:test_ai_settings_simulation_run, tests/test_sim_context.py:test_context_simulation_run, tests/test_sim_execution.py:side_effect, tests/test_spawn_interception_v2.py:test_confirm_spawn_pushed_to_queue, tests/test_status_encapsulation.py:test_status_properties, tests/test_sync_events.py:test_sync_event_queue_multiple, tests/test_sync_events.py:test_sync_event_queue_none_payload, tests/test_sync_events.py:test_sync_event_queue_put_get, tests/test_task_dag_popout_sim.py:test_task_dag_popout, tests/test_tier4_interceptor.py:test_ai_client_passes_qa_callback, tests/test_tiered_aggregation.py:test_app_controller_do_generate_uses_persona_strategy, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_token_usage.py:test_token_usage_tracking, tests/test_tool_management_layout.py:test_tool_management_state_updates, tests/test_tool_preset_env.py:test_tool_preset_env_loading, tests/test_tool_preset_env.py:test_tool_preset_env_no_var, tests/test_tool_presets_sim.py:test_tool_preset_switching, tests/test_ui_cache_controls_sim.py:test_ui_cache_controls, tests/test_ui_summary_only_removal.py:test_project_without_summary_only_loads, tests/test_usage_analytics_popout_sim.py:test_usage_analytics_popout, tests/test_visual_mma.py:test_visual_mma_components, tests/test_visual_orchestration.py:test_mma_epic_lifecycle, tests/test_visual_sim_gui_ux.py:test_gui_ux_event_routing, tests/test_visual_sim_mma_v2.py:_drain_approvals, tests/test_visual_sim_mma_v2.py:_mma_active, tests/test_visual_sim_mma_v2.py:_poll, tests/test_visual_sim_mma_v2.py:_tier3_in_streams, tests/test_visual_sim_mma_v2.py:_tier3_usage_nonzero, tests/test_visual_sim_mma_v2.py:_track_loaded, tests/test_visual_sim_mma_v2.py:test_mma_complete_lifecycle]
+  """
   return getattr(self, key, default)
 
  def to_dict(self) -> Dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return {
    "id": self.id,
    "description": self.description,
@@ -286,6 +310,9 @@ class Ticket:
 
  @classmethod
  def from_dict(cls, data: Dict[str, Any]) -> "Ticket":
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return cls(
    id=data["id"],
    description=data.get("description", ""),
@@ -311,11 +338,17 @@ class Track:
  tickets: List[Ticket] = field(default_factory=list)
 
  def get_executable_tickets(self) -> List[Ticket]:
+  """
+  [C: tests/test_mma_models.py:test_track_get_executable_tickets, tests/test_mma_models.py:test_track_get_executable_tickets_complex]
+  """
   from src.dag_engine import TrackDAG
   dag = TrackDAG(self.tickets)
   return dag.get_ready_tasks()
 
  def to_dict(self) -> Dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return {
    "id": self.id,
    "description": self.description,
@@ -324,6 +357,9 @@ class Track:
 
  @classmethod
  def from_dict(cls, data: Dict[str, Any]) -> "Track":
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return cls(
    id=data["id"],
    description=data.get("description", ""),
@@ -347,6 +383,9 @@ class Metadata:
  updated_at: Optional[datetime.datetime] = None
 
  def to_dict(self) -> Dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return {
    "id": self.id,
    "name": self.name,
@@ -357,6 +396,9 @@ class Metadata:
 
  @classmethod
  def from_dict(cls, data: Dict[str, Any]) -> "Metadata":
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   created = data.get("created_at")
   updated = data.get("updated_at")
   if isinstance(created, str):
@@ -386,6 +428,9 @@ class TrackState:
  tasks: List[Ticket] = field(default_factory=list)
 
  def to_dict(self) -> Dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   serialized_discussion = []
   for item in self.discussion:
    if isinstance(item, dict):
@@ -403,6 +448,9 @@ class TrackState:
 
  @classmethod
  def from_dict(cls, data: Dict[str, Any]) -> "TrackState":
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   discussion = data.get("discussion", [])
   parsed_discussion = []
   for item in discussion:
@@ -450,6 +498,9 @@ class FileItem:
    self.custom_slices = normalized
 
  def to_dict(self) -> Dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return {
    "path": self.path,
    "auto_aggregate": self.auto_aggregate,
@@ -464,6 +515,9 @@ class FileItem:
 
  @classmethod
  def from_dict(cls, data: Dict[str, Any]) -> "FileItem":
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return cls(
    path=data["path"],
    auto_aggregate=data.get("auto_aggregate", True),
@@ -482,10 +536,16 @@ class Preset:
  system_prompt: str
 
  def to_dict(self) -> Dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return {"system_prompt": self.system_prompt}
 
  @classmethod
  def from_dict(cls, name: str, data: Dict[str, Any]) -> "Preset":
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return cls(name=name, system_prompt=data.get("system_prompt", ""))
 
 #region: Tool Models
@@ -498,6 +558,9 @@ class Tool:
  parameter_bias: Dict[str, str] = field(default_factory=dict)
 
  def to_dict(self) -> Dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return {
    "name": self.name,
    "approval": self.approval,
@@ -507,6 +570,9 @@ class Tool:
 
  @classmethod
  def from_dict(cls, data: Dict[str, Any]) -> "Tool":
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return cls(
    name=data["name"],
    approval=data.get("approval", "auto"),
@@ -520,6 +586,9 @@ class ToolPreset:
  categories: Dict[str, List[Union[Tool, Any]]]
 
  def to_dict(self) -> Dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   serialized_categories = {}
   for cat, tools in self.categories.items():
    serialized_categories[cat] = [t.to_dict() if isinstance(t, Tool) else t for t in tools]
@@ -527,6 +596,9 @@ class ToolPreset:
 
  @classmethod
  def from_dict(cls, name: str, data: Dict[str, Any]) -> "ToolPreset":
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   raw_categories = data.get("categories", {})
   parsed_categories = {}
   for cat, tools in raw_categories.items():
@@ -540,6 +612,9 @@ class BiasProfile:
  category_multipliers: Dict[str, float] = field(default_factory=dict)
 
  def to_dict(self) -> Dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return {
    "name": self.name,
    "tool_weights": self.tool_weights,
@@ -548,6 +623,9 @@ class BiasProfile:
 
  @classmethod
  def from_dict(cls, data: Dict[str, Any]) -> "BiasProfile":
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return cls(
    name=data["name"],
    tool_weights=data.get("tool_weights", {}),
@@ -563,6 +641,9 @@ class TextEditorConfig:
  diff_args: List[str] = field(default_factory=list)
 
  def to_dict(self) -> Dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return {
    "name": self.name,
    "path": self.path,
@@ -571,6 +652,9 @@ class TextEditorConfig:
 
  @classmethod
  def from_dict(cls, data: Dict[str, Any]) -> "TextEditorConfig":
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return cls(
    name=data["name"],
    path=data["path"],
@@ -583,6 +667,9 @@ class ExternalEditorConfig:
  default_editor: Optional[str] = None
 
  def get_default(self) -> Optional[TextEditorConfig]:
+  """
+  [C: tests/test_external_editor.py:TestExternalEditorConfig.test_get_default_fallback_to_first, tests/test_external_editor.py:TestExternalEditorConfig.test_get_default_returns_configured, tests/test_external_editor.py:TestExternalEditorConfig.test_get_default_returns_none_when_empty]
+  """
   if self.default_editor and self.default_editor in self.editors:
    return self.editors[self.default_editor]
   if self.editors:
@@ -590,6 +677,9 @@ class ExternalEditorConfig:
   return None
 
  def to_dict(self) -> Dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return {
    "editors": {k: v.to_dict() for k, v in self.editors.items()},
    "default_editor": self.default_editor,
@@ -597,6 +687,9 @@ class ExternalEditorConfig:
 
  @classmethod
  def from_dict(cls, data: Dict[str, Any]) -> "ExternalEditorConfig":
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   editors = {}
   for name, ed_data in data.get("editors", {}).items():
    if isinstance(ed_data, dict):
@@ -643,6 +736,9 @@ class Persona:
   return self.preferred_models[0].get("max_output_tokens")
 
  def to_dict(self) -> Dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   res = {"system_prompt": self.system_prompt}
   if self.preferred_models:
    processed = []
@@ -664,6 +760,9 @@ class Persona:
 
  @classmethod
  def from_dict(cls, name: str, data: Dict[str, Any]) -> "Persona":
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   raw_models = data.get("preferred_models", [])
   parsed_models = []
   for m in raw_models:
@@ -702,6 +801,9 @@ class WorkspaceProfile:
  panel_states: Dict[str, Any]
 
  def to_dict(self) -> Dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return {
    "ini_content": self.ini_content,
    "show_windows": self.show_windows,
@@ -710,6 +812,9 @@ class WorkspaceProfile:
 
  @classmethod
  def from_dict(cls, name: str, data: Dict[str, Any]) -> "WorkspaceProfile":
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return cls(
    name=name,
    ini_content=data.get("ini_content", ""),
@@ -723,10 +828,16 @@ class FileViewPreset:
  view_mode: str = "summary"
 
  def to_dict(self) -> dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return {"path": self.path, "view_mode": self.view_mode}
 
  @classmethod
  def from_dict(cls, data: dict[str, Any]) -> "FileViewPreset":
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return cls(path=data.get("path", ""), view_mode=data.get("view_mode", "summary"))
 
 @dataclass
@@ -737,10 +848,16 @@ class NamedViewPreset:
  custom_slices: list = field(default_factory=list)
 
  def to_dict(self) -> dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return {"name": self.name, "view_mode": self.view_mode, "ast_mask": self.ast_mask, "custom_slices": self.custom_slices}
 
  @classmethod
  def from_dict(cls, data: dict[str, Any]) -> "NamedViewPreset":
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return cls(
    name=data.get("name", ""),
    view_mode=data.get("view_mode", "summary"),
@@ -755,10 +872,16 @@ class ContextPreset:
  screenshots: list[str] = field(default_factory=list)
 
  def to_dict(self) -> dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return {"files": [f.to_dict() for f in self.files], "screenshots": self.screenshots}
 
  @classmethod
  def from_dict(cls, name: str, data: dict[str, Any]) -> "ContextPreset":
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   files_data = data.get("files", [])
   return cls(
    name=name,
@@ -777,6 +900,9 @@ class MCPServerConfig:
  auto_start: bool = False
 
  def to_dict(self) -> Dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   res = {'auto_start': self.auto_start}
   if self.command: res['command'] = self.command
   if self.args: res['args'] = self.args
@@ -785,6 +911,9 @@ class MCPServerConfig:
 
  @classmethod
  def from_dict(cls, name: str, data: Dict[str, Any]) -> 'MCPServerConfig':
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return cls(
    name=name,
    command=data.get('command'),
@@ -798,10 +927,16 @@ class MCPConfiguration:
  mcpServers: Dict[str, MCPServerConfig] = field(default_factory=dict)
 
  def to_dict(self) -> Dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return {'mcpServers': {name: cfg.to_dict() for name, cfg in self.mcpServers.items()}}
 
  @classmethod
  def from_dict(cls, data: Dict[str, Any]) -> 'MCPConfiguration':
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   raw_servers = data.get('mcpServers', {})
   parsed_servers = {name: MCPServerConfig.from_dict(name, cfg) for name, cfg in raw_servers.items()}
   return cls(mcpServers=parsed_servers)
@@ -816,6 +951,9 @@ class VectorStoreConfig:
  mcp_tool: Optional[str] = None
 
  def to_dict(self) -> Dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return {
    "provider": self.provider,
    "url": self.url,
@@ -827,6 +965,9 @@ class VectorStoreConfig:
 
  @classmethod
  def from_dict(cls, data: Dict[str, Any]) -> "VectorStoreConfig":
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return cls(
    provider=data["provider"],
    url=data.get("url"),
@@ -845,6 +986,9 @@ class RAGConfig:
  chunk_overlap: int = 200
 
  def to_dict(self) -> Dict[str, Any]:
+  """
+  [C: src/personas.py:PersonaManager.save_persona, src/presets.py:PresetManager.save_preset, src/project_manager.py:save_project, src/project_manager.py:save_track_state, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.save_profile, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_serialization_with_annotations, tests/test_event_serialization.py:test_user_request_event_serialization, tests/test_external_editor.py:TestExternalEditorConfig.test_to_dict, tests/test_external_editor.py:TestTextEditorConfig.test_to_dict, tests/test_file_item_model.py:test_file_item_to_dict, tests/test_gui_events_v2.py:test_user_request_event_payload, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_serialization, tests/test_persona_id.py:test_ticket_persona_id_serialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_serialization, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_thinking_gui.py:test_thinking_segment_model_compatibility, tests/test_ticket_queue.py:test_ticket_to_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_to_dict, tests/test_track_state_schema.py:test_track_state_to_dict_with_none, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return {
    "enabled": self.enabled,
    "vector_store": self.vector_store.to_dict(),
@@ -855,6 +999,9 @@ class RAGConfig:
 
  @classmethod
  def from_dict(cls, data: Dict[str, Any]) -> "RAGConfig":
+  """
+  [C: src/personas.py:PersonaManager.load_all, src/presets.py:PresetManager.load_all, src/project_manager.py:load_project, src/project_manager.py:load_track_state, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets, src/workspace_manager.py:WorkspaceManager.load_all_profiles, tests/test_bias_models.py:test_bias_profile_model, tests/test_bias_models.py:test_tool_model, tests/test_bias_models.py:test_tool_preset_extension, tests/test_context_presets_models.py:test_context_preset_from_dict_legacy, tests/test_context_presets_models.py:test_context_preset_serialization, tests/test_context_presets_models.py:test_file_view_preset_serialization, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_deserialization_with_annotations, tests/test_custom_slices_annotations.py:test_file_item_custom_slices_round_trip_annotations, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_dict_editors, tests/test_external_editor.py:TestExternalEditorConfig.test_from_dict_with_string_editors, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_with_diff_args, tests/test_external_editor.py:TestTextEditorConfig.test_from_dict_without_diff_args, tests/test_file_item_model.py:test_file_item_from_dict, tests/test_file_item_model.py:test_file_item_from_dict_defaults, tests/test_history_manager.py:TestHistoryManager.test_snapshot_roundtrip, tests/test_mcp_config.py:test_mcp_configuration_to_from_dict, tests/test_mcp_config.py:test_mcp_server_config_to_from_dict, tests/test_per_ticket_model.py:test_model_override_default_on_deserialize, tests/test_per_ticket_model.py:test_model_override_deserialization, tests/test_persona_id.py:test_ticket_persona_id_deserialization, tests/test_persona_models.py:test_persona_defaults, tests/test_persona_models.py:test_persona_deserialization, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_slice_editor_behavior.py:test_add_slice_with_annotations, tests/test_ticket_queue.py:test_ticket_from_dict_default_priority, tests/test_ticket_queue.py:test_ticket_from_dict_priority, tests/test_tiered_aggregation.py:test_persona_aggregation_strategy, tests/test_track_state_schema.py:test_track_state_from_dict, tests/test_track_state_schema.py:test_track_state_from_dict_empty_and_missing, tests/test_ui_summary_only_removal.py:test_file_item_serialization_with_flags]
+  """
   return cls(
    enabled=data.get("enabled", False),
    vector_store=VectorStoreConfig.from_dict(data.get("vector_store", {"provider": "mock"})),
@@ -865,7 +1012,7 @@ class RAGConfig:
 
 def load_mcp_config(path: str) -> MCPConfiguration:
  """
- [C: tests/test_mcp_config.py:test_load_mcp_config]
+  [C: tests/test_mcp_config.py:test_load_mcp_config]
  """
  if not os.path.exists(path):
   return MCPConfiguration()
@@ -876,4 +1023,4 @@ def load_mcp_config(path: str) -> MCPConfiguration:
   except Exception:
    return MCPConfiguration()
 
-#endregion: MCP Config
+#endregion: MCP Config
\ No newline at end of file
diff --git a/src/multi_agent_conductor.py b/src/multi_agent_conductor.py
index 5249618..36453c5 100644
--- a/src/multi_agent_conductor.py
+++ b/src/multi_agent_conductor.py
@@ -48,7 +48,8 @@ from src.dag_engine import TrackDAG, ExecutionEngine
 class WorkerPool:
  """
  
-  Manages a pool of worker threads with a concurrency limit.
+  
+   Manages a pool of worker threads with a concurrency limit.
  """
  def __init__(self, max_workers: int = 4):
   self.max_workers = max_workers
@@ -59,8 +60,9 @@ class WorkerPool:
  def spawn(self, ticket_id: str, target: Callable, args: tuple) -> Optional[threading.Thread]:
   """
   
-    Spawns a new worker thread if the pool is not full.
-    Returns the thread object or None if full.
+    
+      Spawns a new worker thread if the pool is not full.
+      Returns the thread object or None if full.
     [C: tests/test_parallel_execution.py:test_worker_pool_completion_cleanup, tests/test_parallel_execution.py:test_worker_pool_limit, tests/test_parallel_execution.py:test_worker_pool_tracking]
   """
   with self._lock:
@@ -83,7 +85,7 @@ class WorkerPool:
 
  def join_all(self, timeout: float = None) -> None:
   """
-  [C: tests/test_parallel_execution.py:test_conductor_engine_pool_integration, tests/test_parallel_execution.py:test_worker_pool_limit, tests/test_parallel_execution.py:test_worker_pool_tracking]
+    [C: tests/test_parallel_execution.py:test_conductor_engine_pool_integration, tests/test_parallel_execution.py:test_worker_pool_limit, tests/test_parallel_execution.py:test_worker_pool_tracking]
   """
   with self._lock:
    threads = list(self._active.values())
@@ -94,21 +96,22 @@ class WorkerPool:
 
  def get_active_count(self) -> int:
   """
-  [C: tests/test_parallel_execution.py:test_conductor_engine_pool_integration, tests/test_parallel_execution.py:test_worker_pool_completion_cleanup, tests/test_parallel_execution.py:test_worker_pool_limit]
+    [C: tests/test_parallel_execution.py:test_conductor_engine_pool_integration, tests/test_parallel_execution.py:test_worker_pool_completion_cleanup, tests/test_parallel_execution.py:test_worker_pool_limit]
   """
   with self._lock:
    return len(self._active)
 
  def is_full(self) -> bool:
   """
-  [C: tests/test_parallel_execution.py:test_worker_pool_limit]
+    [C: tests/test_parallel_execution.py:test_worker_pool_limit]
   """
   return self.get_active_count() >= self.max_workers
 
 class ConductorEngine:
  """
  
-     Orchestrates the execution of tickets within a track.
+  
+      Orchestrates the execution of tickets within a track.
  """
 
  def __init__(self, track: Track, event_queue: Optional[events.AsyncEventQueue] = None, auto_queue: bool = False) -> None:
@@ -148,21 +151,24 @@ class ConductorEngine:
 
  def pause(self) -> None:
   """
-  Pauses the pipeline execution.
+  
+    Pauses the pipeline execution.
     [C: tests/test_pipeline_pause.py:test_pause_method, tests/test_pipeline_pause.py:test_resume_method]
   """
   self._pause_event.set()
 
  def resume(self) -> None:
   """
-  Resumes the pipeline execution.
+  
+    Resumes the pipeline execution.
     [C: tests/test_pipeline_pause.py:test_resume_method]
   """
   self._pause_event.clear()
 
  def approve_task(self, task_id: str) -> None:
   """
-  Manually transition todo to in_progress and mark engine dirty.
+  
+    Manually transition todo to in_progress and mark engine dirty.
     [C: tests/test_execution_engine.py:test_execution_engine_approve_task, tests/test_execution_engine.py:test_execution_engine_step_mode]
   """
   self.engine.approve_task(task_id)
@@ -170,7 +176,8 @@ class ConductorEngine:
 
  def update_task_status(self, task_id: str, status: str) -> None:
   """
-  Force-update ticket status and mark engine dirty.
+  
+    Force-update ticket status and mark engine dirty.
     [C: tests/test_arch_boundary_phase3.py:TestArchBoundaryPhase3.test_manual_unblock_restores_todo, tests/test_execution_engine.py:test_execution_engine_auto_queue, tests/test_execution_engine.py:test_execution_engine_basic_flow, tests/test_execution_engine.py:test_execution_engine_status_persistence, tests/test_execution_engine.py:test_execution_engine_update_nonexistent_task]
   """
   self.engine.update_task_status(task_id, status)
@@ -178,7 +185,8 @@ class ConductorEngine:
 
  def kill_worker(self, ticket_id: str) -> None:
   """
-  Sets the abort event for a worker and attempts to join its thread.
+  
+    Sets the abort event for a worker and attempts to join its thread.
     [C: tests/test_conductor_engine_abort.py:test_kill_worker_sets_abort_and_joins_thread]
   """
   if ticket_id in self._abort_events:
@@ -213,8 +221,9 @@ class ConductorEngine:
  def parse_json_tickets(self, json_str: str) -> None:
   """
   
-          Parses a JSON string of ticket definitions (Godot ECS Flat List format)
-          and populates the Track's ticket list.
+    
+            Parses a JSON string of ticket definitions (Godot ECS Flat List format)
+            and populates the Track's ticket list.
     [C: tests/test_conductor_engine_v2.py:test_conductor_engine_dynamic_parsing_and_execution, tests/test_orchestration_logic.py:test_conductor_engine_parse_json_tickets]
   """
   try:
@@ -244,11 +253,12 @@ class ConductorEngine:
  def run(self, md_content: str = "", max_ticks: Optional[int] = None) -> None:
   """
   
-          Main execution loop using the DAG engine.
-          Args:
-              md_content: The full markdown context (history + files) for AI workers.
-              max_ticks: Optional limit on number of iterations (for testing).
-    [C: simulation/sim_base.py:run_sim, src/project_manager.py:get_git_commit, src/project_manager.py:get_git_log, src/rag_engine.py:RAGEngine._search_mcp, src/shell_runner.py:run_powershell, tests/conftest.py:kill_process_tree, tests/conftest.py:live_gui, tests/test_conductor_abort_event.py:test_conductor_abort_event_populated, tests/test_conductor_engine_v2.py:test_conductor_engine_dynamic_parsing_and_execution, tests/test_conductor_engine_v2.py:test_conductor_engine_run_executes_tickets_in_order, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_external_editor_gui.py:get_vscode_processes, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui_custom_window.py:test_app_window_is_borderless, tests/test_headless_simulation.py:module, tests/test_headless_verification.py:test_headless_verification_error_and_qa_interceptor, tests/test_headless_verification.py:test_headless_verification_full_run, tests/test_mock_gemini_cli.py:run_mock, tests/test_orchestration_logic.py:test_conductor_engine_run, tests/test_parallel_execution.py:test_conductor_engine_pool_integration, tests/test_sim_ai_settings.py:test_ai_settings_simulation_run, tests/test_sim_context.py:test_context_simulation_run, tests/test_sim_execution.py:test_execution_simulation_run, tests/test_sim_tools.py:test_tools_simulation_run]
+    
+            Main execution loop using the DAG engine.
+            Args:
+                md_content: The full markdown context (history + files) for AI workers.
+                max_ticks: Optional limit on number of iterations (for testing).
+    [C: simulation/sim_base.py:run_sim, src/project_manager.py:get_git_commit, src/rag_engine.py:RAGEngine._search_mcp, src/shell_runner.py:run_powershell, tests/conftest.py:kill_process_tree, tests/conftest.py:live_gui, tests/test_conductor_abort_event.py:test_conductor_abort_event_populated, tests/test_conductor_engine_v2.py:test_conductor_engine_dynamic_parsing_and_execution, tests/test_conductor_engine_v2.py:test_conductor_engine_run_executes_tickets_in_order, tests/test_extended_sims.py:test_ai_settings_sim_live, tests/test_extended_sims.py:test_context_sim_live, tests/test_extended_sims.py:test_execution_sim_live, tests/test_extended_sims.py:test_tools_sim_live, tests/test_external_editor_gui.py:get_vscode_processes, tests/test_external_editor_gui.py:test_vscode_launches_with_diff_view, tests/test_gui_custom_window.py:test_app_window_is_borderless, tests/test_headless_simulation.py:module, tests/test_headless_verification.py:test_headless_verification_error_and_qa_interceptor, tests/test_headless_verification.py:test_headless_verification_full_run, tests/test_mock_gemini_cli.py:run_mock, tests/test_orchestration_logic.py:test_conductor_engine_run, tests/test_parallel_execution.py:test_conductor_engine_pool_integration, tests/test_sim_ai_settings.py:test_ai_settings_simulation_run, tests/test_sim_context.py:test_context_simulation_run, tests/test_sim_execution.py:test_execution_simulation_run, tests/test_sim_tools.py:test_tools_simulation_run]
   """
   tick_count = 0
   while True:
@@ -368,7 +378,8 @@ def _queue_put(event_queue: events.AsyncEventQueue, event_name: str, payload) ->
 def confirm_execution(payload: str, event_queue: events.AsyncEventQueue, ticket_id: str) -> bool:
  """
  
-     Pushes an approval request to the GUI and waits for response.
+  
+      Pushes an approval request to the GUI and waits for response.
  """
  dialog_container = [None]
  task = {
@@ -391,8 +402,9 @@ def confirm_execution(payload: str, event_queue: events.AsyncEventQueue, ticket_
 def confirm_spawn(role: str, prompt: str, context_md: str, event_queue: events.AsyncEventQueue, ticket_id: str) -> Tuple[bool, str, str]:
  """
  
-     Pushes a spawn approval request to the GUI and waits for response.
-     Returns (approved, modified_prompt, modified_context)
+  
+      Pushes a spawn approval request to the GUI and waits for response.
+      Returns (approved, modified_prompt, modified_context)
   [C: tests/test_spawn_interception_v2.py:run_confirm]
  """
  dialog_container = [None]
@@ -432,15 +444,16 @@ def confirm_spawn(role: str, prompt: str, context_md: str, event_queue: events.A
 def run_worker_lifecycle(ticket: Ticket, context: WorkerContext, context_files: List[str] | None = None, event_queue: events.AsyncEventQueue | None = None, engine: Optional['ConductorEngine'] = None, md_content: str = "") -> None:
  """
  
-     Simulates the lifecycle of a single agent working on a ticket.
-     Calls the AI client and updates the ticket status based on the response.
-     Args:
-         ticket: The ticket to process.
-         context: The worker context.
-         context_files: List of files to include in the context.
-         event_queue: Queue for pushing state updates and receiving approvals.
-         engine: The conductor engine.
-         md_content: The markdown context (history + files) for AI workers.
+  
+      Simulates the lifecycle of a single agent working on a ticket.
+      Calls the AI client and updates the ticket status based on the response.
+      Args:
+          ticket: The ticket to process.
+          context: The worker context.
+          context_files: List of files to include in the context.
+          event_queue: Queue for pushing state updates and receiving approvals.
+          engine: The conductor engine.
+          md_content: The markdown context (history + files) for AI workers.
   [C: tests/test_conductor_engine_v2.py:test_run_worker_lifecycle_calls_ai_client_send, tests/test_conductor_engine_v2.py:test_run_worker_lifecycle_context_injection, tests/test_conductor_engine_v2.py:test_run_worker_lifecycle_handles_blocked_response, tests/test_conductor_engine_v2.py:test_run_worker_lifecycle_pushes_response_via_queue, tests/test_conductor_engine_v2.py:test_run_worker_lifecycle_step_mode_confirmation, tests/test_conductor_engine_v2.py:test_run_worker_lifecycle_step_mode_rejection, tests/test_conductor_engine_v2.py:test_run_worker_lifecycle_token_usage_from_comms_log, tests/test_context_pruner.py:test_token_reduction_logging, tests/test_orchestration_logic.py:test_run_worker_lifecycle_blocked, tests/test_phase6_engine.py:test_worker_streaming_intermediate, tests/test_run_worker_lifecycle_abort.py:TestRunWorkerLifecycleAbort.test_run_worker_lifecycle_returns_early_on_abort, tests/test_spawn_interception_v2.py:test_run_worker_lifecycle_approved, tests/test_spawn_interception_v2.py:test_run_worker_lifecycle_rejected, tests/test_tiered_aggregation.py:test_run_worker_lifecycle_uses_strategy]
  """
  # Enforce Context Amnesia: each ticket starts with a clean slate.
@@ -645,4 +658,4 @@ def run_worker_lifecycle(ticket: Ticket, context: WorkerContext, context_files:
  
  if event_queue:
   _queue_put(event_queue, "ticket_completed", {"ticket_id": ticket.id, "timestamp": time.time()})
- return response
+ return response
\ No newline at end of file
diff --git a/src/orchestrator_pm.py b/src/orchestrator_pm.py
index 8fb6203..6c36e61 100644
--- a/src/orchestrator_pm.py
+++ b/src/orchestrator_pm.py
@@ -12,7 +12,8 @@ from src import paths
 def get_track_history_summary() -> str:
  """
  
-     Scans conductor/archive/ and conductor/tracks/ to build a summary of past work.
+  
+      Scans conductor/archive/ and conductor/tracks/ to build a summary of past work.
   [C: tests/test_orchestrator_pm_history.py:TestOrchestratorPMHistory.test_get_track_history_summary, tests/test_orchestrator_pm_history.py:TestOrchestratorPMHistory.test_get_track_history_summary_missing_files]
  """
  summary_parts = []
@@ -59,8 +60,9 @@ def get_track_history_summary() -> str:
 def generate_tracks(user_request: str, project_config: dict[str, Any], file_items: list[dict[str, Any]], history_summary: Optional[str] = None) -> list[dict[str, Any]]:
  """
  
-     Tier 1 (Strategic PM) call. 
-     Analyzes the project state and user request to generate a list of Tracks.
+  
+      Tier 1 (Strategic PM) call. 
+      Analyzes the project state and user request to generate a list of Tracks.
   [C: tests/test_orchestration_logic.py:test_generate_tracks, tests/test_orchestrator_pm.py:TestOrchestratorPM.test_generate_tracks_malformed_json, tests/test_orchestrator_pm.py:TestOrchestratorPM.test_generate_tracks_markdown_wrapped, tests/test_orchestrator_pm.py:TestOrchestratorPM.test_generate_tracks_success, tests/test_orchestrator_pm_history.py:TestOrchestratorPMHistory.test_generate_tracks_with_history]
  """
  # 1. Build Repository Map (Summary View)
@@ -128,4 +130,4 @@ if __name__ == "__main__":
   print("Testing Tier 1 Track Generation...")
   history = get_track_history_summary()
   tracks = generate_tracks("Implement a basic unit test for the ai_client.py module.", flat, file_items, history_summary=history)
-  print(json.dumps(tracks, indent=2))
+  print(json.dumps(tracks, indent=2))
\ No newline at end of file
diff --git a/src/outline_tool.py b/src/outline_tool.py
index a533fde..5bba742 100644
--- a/src/outline_tool.py
+++ b/src/outline_tool.py
@@ -39,6 +39,9 @@ class CodeOutliner:
   pass
 
  def outline(self, code: str) -> str:
+  """
+  [C: tests/test_outline_tool.py:test_code_outliner_imgui_scopes, tests/test_outline_tool.py:test_code_outliner_nested_ifs, tests/test_outline_tool.py:test_code_outliner_type_hints]
+  """
   code = code.lstrip(chr(0xFEFF))
   try:
    tree = ast.parse(code)
@@ -55,6 +58,9 @@ class CodeOutliner:
 
   count = [0]
   def walk(node: ast.AST, indent: int = 0) -> None:
+   """
+   [C: src/summarize.py:_summarise_python]
+   """
    count[0] += 1
    if count[0] > 100000:
     raise Exception("Infinite loop detected! " + str(type(node)))
@@ -120,4 +126,4 @@ def get_outline(path: Path, code: str) -> str:
   outliner = CodeOutliner()
   return outliner.outline(code)
  else:
-  return f"Outlining not supported for {suffix} files yet."
+  return f"Outlining not supported for {suffix} files yet."
\ No newline at end of file
diff --git a/src/patch_modal.py b/src/patch_modal.py
index 8461449..148d793 100644
--- a/src/patch_modal.py
+++ b/src/patch_modal.py
@@ -17,7 +17,7 @@ class PatchModalManager:
   
   def request_patch_approval(self, patch_text: str, file_paths: List[str], generated_by: str = "Tier 4 QA") -> bool:
     """
-    [C: tests/test_patch_modal.py:test_close_modal, tests/test_patch_modal.py:test_reject_patch, tests/test_patch_modal.py:test_request_patch_approval, tests/test_patch_modal.py:test_reset]
+        [C: tests/test_patch_modal.py:test_close_modal, tests/test_patch_modal.py:test_reject_patch, tests/test_patch_modal.py:test_request_patch_approval, tests/test_patch_modal.py:test_reset]
     """
     from time import time
     self._pending_patch = PendingPatch(
@@ -31,31 +31,31 @@ class PatchModalManager:
   
   def get_pending_patch(self) -> Optional[PendingPatch]:
     """
-    [C: tests/test_patch_modal.py:test_patch_modal_manager_init, tests/test_patch_modal.py:test_reject_patch, tests/test_patch_modal.py:test_request_patch_approval, tests/test_patch_modal.py:test_reset]
+        [C: tests/test_patch_modal.py:test_patch_modal_manager_init, tests/test_patch_modal.py:test_reject_patch, tests/test_patch_modal.py:test_request_patch_approval, tests/test_patch_modal.py:test_reset]
     """
     return self._pending_patch
   
   def is_modal_shown(self) -> bool:
     """
-    [C: tests/test_patch_modal.py:test_close_modal, tests/test_patch_modal.py:test_patch_modal_manager_init, tests/test_patch_modal.py:test_reject_patch, tests/test_patch_modal.py:test_request_patch_approval, tests/test_patch_modal.py:test_reset]
+        [C: tests/test_patch_modal.py:test_close_modal, tests/test_patch_modal.py:test_patch_modal_manager_init, tests/test_patch_modal.py:test_reject_patch, tests/test_patch_modal.py:test_request_patch_approval, tests/test_patch_modal.py:test_reset]
     """
     return self._show_modal
   
   def set_apply_callback(self, callback: Callable[[str], bool]) -> None:
     """
-    [C: tests/test_patch_modal.py:test_apply_callback, tests/test_patch_modal.py:test_reset]
+        [C: tests/test_patch_modal.py:test_apply_callback, tests/test_patch_modal.py:test_reset]
     """
     self._on_apply_callback = callback
   
   def set_reject_callback(self, callback: Callable[[], None]) -> None:
     """
-    [C: tests/test_patch_modal.py:test_reject_callback, tests/test_patch_modal.py:test_reset]
+        [C: tests/test_patch_modal.py:test_reject_callback, tests/test_patch_modal.py:test_reset]
     """
     self._on_reject_callback = callback
   
   def apply_patch(self, patch_text: str) -> bool:
     """
-    [C: tests/test_patch_modal.py:test_apply_callback]
+        [C: tests/test_patch_modal.py:test_apply_callback]
     """
     if self._on_apply_callback:
       return self._on_apply_callback(patch_text)
@@ -63,7 +63,7 @@ class PatchModalManager:
   
   def reject_patch(self) -> None:
     """
-    [C: tests/test_patch_modal.py:test_reject_callback, tests/test_patch_modal.py:test_reject_patch]
+        [C: tests/test_patch_modal.py:test_reject_callback, tests/test_patch_modal.py:test_reject_patch]
     """
     self._pending_patch = None
     self._show_modal = False
@@ -72,13 +72,13 @@ class PatchModalManager:
   
   def close_modal(self) -> None:
     """
-    [C: tests/test_patch_modal.py:test_close_modal]
+        [C: tests/test_patch_modal.py:test_close_modal]
     """
     self._show_modal = False
   
   def reset(self) -> None:
     """
-    [C: tests/test_patch_modal.py:test_reset]
+        [C: tests/test_patch_modal.py:test_reset]
     """
     self._pending_patch = None
     self._show_modal = False
@@ -89,7 +89,7 @@ _patch_modal_manager: Optional[PatchModalManager] = None
 
 def get_patch_modal_manager() -> PatchModalManager:
   """
-  [C: tests/test_patch_modal.py:test_get_patch_modal_manager_singleton]
+    [C: tests/test_patch_modal.py:test_get_patch_modal_manager_singleton]
   """
   global _patch_modal_manager
   if _patch_modal_manager is None:
@@ -98,7 +98,7 @@ def get_patch_modal_manager() -> PatchModalManager:
 
 def reset_patch_modal_manager() -> None:
   """
-  [C: tests/test_patch_modal.py:test_get_patch_modal_manager_singleton]
+    [C: tests/test_patch_modal.py:test_get_patch_modal_manager_singleton]
   """
   global _patch_modal_manager
   if _patch_modal_manager:
diff --git a/src/paths.py b/src/paths.py
index 0b597ad..bec4c41 100644
--- a/src/paths.py
+++ b/src/paths.py
@@ -49,60 +49,60 @@ _RESOLVED: dict[str, Path] = {}
 
 def get_config_path() -> Path:
  """
- [C: tests/test_paths.py:test_default_paths]
+  [C: tests/test_paths.py:test_default_paths]
  """
  root_dir = Path(__file__).resolve().parent.parent
  return Path(os.environ.get("SLOP_CONFIG", root_dir / "config.toml"))
 
 def get_global_presets_path() -> Path:
  """
- [C: src/presets.py:PresetManager.__init__, src/presets.py:PresetManager.delete_preset, src/presets.py:PresetManager.get_preset_scope]
+  [C: src/presets.py:PresetManager.__init__, src/presets.py:PresetManager.delete_preset, src/presets.py:PresetManager.get_preset_scope]
  """
  root_dir = Path(__file__).resolve().parent.parent
  return Path(os.environ.get("SLOP_GLOBAL_PRESETS", root_dir / "presets.toml"))
 
 def get_project_presets_path(project_root: Path) -> Path:
  """
- [C: src/presets.py:PresetManager.delete_preset, src/presets.py:PresetManager.get_preset_scope, src/presets.py:PresetManager.project_path]
+  [C: src/presets.py:PresetManager.delete_preset, src/presets.py:PresetManager.get_preset_scope, src/presets.py:PresetManager.project_path]
  """
  return project_root / "project_presets.toml"
 
 def get_global_tool_presets_path() -> Path:
  """
- [C: src/tool_presets.py:ToolPresetManager._get_path, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets]
+  [C: src/tool_presets.py:ToolPresetManager._get_path, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets]
  """
  root_dir = Path(__file__).resolve().parent.parent
  return Path(os.environ.get("SLOP_GLOBAL_TOOL_PRESETS", root_dir / "tool_presets.toml"))
 
 def get_project_tool_presets_path(project_root: Path) -> Path:
  """
- [C: src/tool_presets.py:ToolPresetManager._get_path, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets]
+  [C: src/tool_presets.py:ToolPresetManager._get_path, src/tool_presets.py:ToolPresetManager.load_all_bias_profiles, src/tool_presets.py:ToolPresetManager.load_all_presets]
  """
  return project_root / "project_tool_presets.toml"
 
 def get_global_personas_path() -> Path:
  """
- [C: src/personas.py:PersonaManager._get_path, src/personas.py:PersonaManager.get_persona_scope, src/personas.py:PersonaManager.load_all]
+  [C: src/personas.py:PersonaManager._get_path, src/personas.py:PersonaManager.get_persona_scope, src/personas.py:PersonaManager.load_all]
  """
  root_dir = Path(__file__).resolve().parent.parent
  return Path(os.environ.get("SLOP_GLOBAL_PERSONAS", root_dir / "personas.toml"))
 
 def get_project_personas_path(project_root: Path) -> Path:
  """
- [C: src/personas.py:PersonaManager._get_path, src/personas.py:PersonaManager.get_persona_scope, src/personas.py:PersonaManager.load_all]
+  [C: src/personas.py:PersonaManager._get_path, src/personas.py:PersonaManager.get_persona_scope, src/personas.py:PersonaManager.load_all]
  """
  return project_root / "project_personas.toml"
 
 def get_global_workspace_profiles_path() -> Path:
  """
- [C: src/workspace_manager.py:WorkspaceManager._get_path, src/workspace_manager.py:WorkspaceManager.load_all_profiles]
+  [C: src/workspace_manager.py:WorkspaceManager._get_path, src/workspace_manager.py:WorkspaceManager.load_all_profiles]
  """
  root_dir = Path(__file__).resolve().parent.parent
  return Path(os.environ.get("SLOP_GLOBAL_WORKSPACE_PROFILES", root_dir / "workspace_profiles.toml"))
 
 def get_project_workspace_profiles_path(project_root: Path) -> Path:
  """
- [C: src/workspace_manager.py:WorkspaceManager._get_path, src/workspace_manager.py:WorkspaceManager.load_all_profiles]
+  [C: src/workspace_manager.py:WorkspaceManager._get_path, src/workspace_manager.py:WorkspaceManager.load_all_profiles]
  """
  return project_root / ".ai" / "workspace_profiles.toml"
 
@@ -143,7 +143,7 @@ def _get_project_conductor_dir_from_toml(project_root: Path) -> Optional[Path]:
 
 def get_conductor_dir(project_path: Optional[str] = None) -> Path:
  """
- [C: tests/test_paths.py:test_conductor_dir_project_relative, tests/test_project_paths.py:test_get_conductor_dir_default, tests/test_project_paths.py:test_get_conductor_dir_project_specific_with_toml]
+  [C: tests/test_paths.py:test_conductor_dir_project_relative, tests/test_project_paths.py:test_get_conductor_dir_default, tests/test_project_paths.py:test_get_conductor_dir_project_specific_with_toml]
  """
  if not project_path:
   # Fallback for legacy/tests, but we should avoid this
@@ -157,7 +157,7 @@ def get_conductor_dir(project_path: Optional[str] = None) -> Path:
 
 def get_logs_dir() -> Path:
  """
- [C: src/session_logger.py:close_session, src/session_logger.py:open_session, tests/test_paths.py:test_config_overrides, tests/test_paths.py:test_default_paths, tests/test_paths.py:test_env_var_overrides, tests/test_paths.py:test_precedence]
+  [C: src/session_logger.py:close_session, src/session_logger.py:open_session, tests/test_paths.py:test_config_overrides, tests/test_paths.py:test_default_paths, tests/test_paths.py:test_env_var_overrides, tests/test_paths.py:test_precedence]
  """
  if "logs_dir" not in _RESOLVED:
   _RESOLVED["logs_dir"] = _resolve_path("SLOP_LOGS_DIR", "logs_dir", "logs/sessions")
@@ -165,7 +165,7 @@ def get_logs_dir() -> Path:
 
 def get_scripts_dir() -> Path:
  """
- [C: src/session_logger.py:log_tool_call, src/session_logger.py:open_session, tests/test_paths.py:test_config_overrides, tests/test_paths.py:test_default_paths]
+  [C: src/session_logger.py:log_tool_call, src/session_logger.py:open_session, tests/test_paths.py:test_config_overrides, tests/test_paths.py:test_default_paths]
  """
  if "scripts_dir" not in _RESOLVED:
   _RESOLVED["scripts_dir"] = _resolve_path("SLOP_SCRIPTS_DIR", "scripts_dir", "scripts/generated")
@@ -173,17 +173,20 @@ def get_scripts_dir() -> Path:
 
 def get_tracks_dir(project_path: Optional[str] = None) -> Path:
  """
- [C: src/project_manager.py:get_all_tracks, tests/test_paths.py:test_conductor_dir_project_relative]
+  [C: src/project_manager.py:get_all_tracks, tests/test_paths.py:test_conductor_dir_project_relative]
  """
  return get_conductor_dir(project_path) / "tracks"
 
 def get_track_state_dir(track_id: str, project_path: Optional[str] = None) -> Path:
  """
- [C: src/project_manager.py:load_track_state, src/project_manager.py:save_track_state, tests/test_paths.py:test_conductor_dir_project_relative]
+  [C: src/project_manager.py:load_track_state, src/project_manager.py:save_track_state, tests/test_paths.py:test_conductor_dir_project_relative]
  """
  return get_tracks_dir(project_path) / track_id
 
 def get_archive_dir(project_path: Optional[str] = None) -> Path:
+ """
+ [C: tests/test_paths.py:test_conductor_dir_project_relative]
+ """
  return get_conductor_dir(project_path) / "archive"
 
 def _resolve_path_info(env_var: str, config_key: str, default: str) -> dict[str, Any]:
@@ -210,7 +213,8 @@ def get_full_path_info() -> dict[str, dict[str, Any]]:
 
 def reset_resolved() -> None:
  """
- For testing only - clear cached resolutions.
+ 
+  For testing only - clear cached resolutions.
   [C: tests/conftest.py:reset_paths, tests/test_app_controller_offloading.py:tmp_session_dir, tests/test_gui_phase3.py:test_conductor_setup_scan, tests/test_paths.py:reset_paths, tests/test_project_paths.py:test_get_all_tracks_project_specific, tests/test_project_paths.py:test_get_conductor_dir_default, tests/test_project_paths.py:test_get_conductor_dir_project_specific_with_toml]
  """
  _RESOLVED.clear()
\ No newline at end of file
diff --git a/src/performance_monitor.py b/src/performance_monitor.py
index 33bcf45..f578f88 100644
--- a/src/performance_monitor.py
+++ b/src/performance_monitor.py
@@ -77,7 +77,7 @@ class PerformanceScope:
 
 def get_monitor() -> PerformanceMonitor:
  """
- [C: tests/test_perf_aggregate.py:test_build_tier3_context_scaling, tests/test_perf_dag.py:test_dag_performance]
+  [C: tests/test_perf_aggregate.py:test_build_tier3_context_scaling, tests/test_perf_dag.py:test_dag_performance]
  """
  global _instance
  if _instance is None:
@@ -87,8 +87,9 @@ def get_monitor() -> PerformanceMonitor:
 class PerformanceMonitor:
  """
  
-     Tracks application performance metrics like FPS, frame time, and CPU usage.
-     Supports thread-safe tracking for individual components with efficient moving averages.
+  
+      Tracks application performance metrics like FPS, frame time, and CPU usage.
+      Supports thread-safe tracking for individual components with efficient moving averages.
  """
  def __init__(self, history_size: int = 300) -> None:
   self.enabled: bool = False
@@ -160,7 +161,7 @@ class PerformanceMonitor:
 
  def start_frame(self) -> None:
   """
-  [C: tests/test_performance_monitor.py:test_perf_monitor_basic_timing]
+    [C: tests/test_performance_monitor.py:test_perf_monitor_basic_timing]
   """
   now = time.perf_counter()
   with self._lock:
@@ -174,7 +175,7 @@ class PerformanceMonitor:
 
  def end_frame(self) -> None:
   """
-  [C: tests/test_performance_monitor.py:test_perf_monitor_basic_timing]
+    [C: tests/test_performance_monitor.py:test_perf_monitor_basic_timing]
   """
   if self._start_time is None:
    return
@@ -205,7 +206,7 @@ class PerformanceMonitor:
 
  def start_component(self, name: str) -> None:
   """
-  [C: tests/test_performance_monitor.py:test_perf_monitor_component_timing, tests/test_performance_monitor.py:test_perf_monitor_extended_metrics]
+    [C: tests/test_performance_monitor.py:test_perf_monitor_component_timing, tests/test_performance_monitor.py:test_perf_monitor_extended_metrics]
   """
   if not self.enabled: return
   now = time.perf_counter()
@@ -214,7 +215,7 @@ class PerformanceMonitor:
 
  def end_component(self, name: str) -> None:
   """
-  [C: tests/test_performance_monitor.py:test_perf_monitor_component_timing, tests/test_performance_monitor.py:test_perf_monitor_extended_metrics]
+    [C: tests/test_performance_monitor.py:test_perf_monitor_component_timing, tests/test_performance_monitor.py:test_perf_monitor_extended_metrics]
   """
   if not self.enabled: return
   now = time.perf_counter()
@@ -233,7 +234,8 @@ class PerformanceMonitor:
 
  def get_metrics(self) -> dict[str, float]:
   """
-  Returns current metrics and their moving averages. Thread-safe.
+  
+    Returns current metrics and their moving averages. Thread-safe.
     [C: tests/test_perf_aggregate.py:test_build_tier3_context_scaling, tests/test_perf_dag.py:test_dag_performance, tests/test_performance_monitor.py:test_perf_monitor_basic_timing, tests/test_performance_monitor.py:test_perf_monitor_component_timing, tests/test_performance_monitor.py:test_perf_monitor_extended_metrics, tests/test_performance_monitor.py:test_perf_monitor_scope_context_manager]
   """
   with self._lock:
@@ -269,8 +271,9 @@ class PerformanceMonitor:
 
  def get_history(self, key: str) -> List[float]:
   """
-  Returns a snapshot of the full history buffer for a specific metric key.
-    [C: tests/test_history.py:test_initial_state, tests/test_history.py:test_push_state]
+  
+    Returns a snapshot of the full history buffer for a specific metric key.
+    [C: tests/test_history.py:test_initial_state, tests/test_history.py:test_push_state, tests/test_history_manager.py:TestHistoryManager.test_get_history_returns_descriptions]
   """
   with self._lock:
    if key in self._history:
@@ -281,15 +284,16 @@ class PerformanceMonitor:
 
  def scope(self, name: str) -> PerformanceScope:
   """
-  Returns a context manager for timing a component.
+  
+    Returns a context manager for timing a component.
     [C: tests/test_perf_aggregate.py:test_build_tier3_context_scaling, tests/test_performance_monitor.py:test_perf_monitor_scope_context_manager]
   """
   return PerformanceScope(self, name)
 
  def stop(self) -> None:
   """
-  [C: tests/test_performance_monitor.py:test_perf_monitor_basic_timing, tests/test_performance_monitor.py:test_perf_monitor_component_timing, tests/test_performance_monitor.py:test_perf_monitor_extended_metrics, tests/test_performance_monitor.py:test_perf_monitor_scope_context_manager, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
+    [C: tests/test_performance_monitor.py:test_perf_monitor_basic_timing, tests/test_performance_monitor.py:test_perf_monitor_component_timing, tests/test_performance_monitor.py:test_perf_monitor_extended_metrics, tests/test_performance_monitor.py:test_perf_monitor_scope_context_manager, tests/test_websocket_server.py:test_websocket_subscription_and_broadcast]
   """
   self._stop_event.set()
   if self._cpu_thread.is_alive():
-   self._cpu_thread.join(timeout=2.0)
+   self._cpu_thread.join(timeout=2.0)
\ No newline at end of file
diff --git a/src/personas.py b/src/personas.py
index 0cc2387..6ece285 100644
--- a/src/personas.py
+++ b/src/personas.py
@@ -13,7 +13,7 @@ class PersonaManager:
 
  def _get_path(self, scope: str) -> Path:
   """
-  [C: src/tool_presets.py:ToolPresetManager.delete_bias_profile, src/tool_presets.py:ToolPresetManager.delete_preset, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.delete_profile, src/workspace_manager.py:WorkspaceManager.save_profile]
+    [C: src/tool_presets.py:ToolPresetManager.delete_bias_profile, src/tool_presets.py:ToolPresetManager.delete_preset, src/tool_presets.py:ToolPresetManager.save_bias_profile, src/tool_presets.py:ToolPresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.delete_profile, src/workspace_manager.py:WorkspaceManager.save_profile]
   """
   if scope == "global":
    return paths.get_global_personas_path()
@@ -26,7 +26,8 @@ class PersonaManager:
 
  def load_all(self) -> Dict[str, Persona]:
   """
-  Merges global and project personas into a single dictionary.
+  
+    Merges global and project personas into a single dictionary.
     [C: tests/test_persona_manager.py:test_delete_persona, tests/test_persona_manager.py:test_load_all_merged, tests/test_persona_manager.py:test_save_persona, tests/test_preset_manager.py:test_delete_preset, tests/test_preset_manager.py:test_load_all_merged, tests/test_preset_manager.py:test_save_preset_global, tests/test_preset_manager.py:test_save_preset_project, tests/test_presets.py:TestPresetManager.test_delete_preset, tests/test_presets.py:TestPresetManager.test_project_overwrites_global, tests/test_presets.py:TestPresetManager.test_save_and_load_global, tests/test_presets.py:TestPresetManager.test_save_and_load_project]
   """
   personas = {}
@@ -46,7 +47,7 @@ class PersonaManager:
 
  def save_persona(self, persona: Persona, scope: str = "project") -> None:
   """
-  [C: tests/test_persona_manager.py:test_save_persona]
+    [C: tests/test_persona_manager.py:test_save_persona]
   """
   path = self._get_path(scope)
   data = self._load_file(path)
@@ -73,7 +74,7 @@ class PersonaManager:
 
  def delete_persona(self, name: str, scope: str = "project") -> None:
   """
-  [C: tests/test_persona_manager.py:test_delete_persona]
+    [C: tests/test_persona_manager.py:test_delete_persona]
   """
   path = self._get_path(scope)
   data = self._load_file(path)
@@ -83,7 +84,7 @@ class PersonaManager:
 
  def _load_file(self, path: Path) -> Dict[str, Any]:
   """
-  [C: src/presets.py:PresetManager.delete_preset, src/presets.py:PresetManager.get_preset_scope, src/presets.py:PresetManager.load_all, src/presets.py:PresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.delete_profile, src/workspace_manager.py:WorkspaceManager.load_all_profiles, src/workspace_manager.py:WorkspaceManager.save_profile]
+    [C: src/presets.py:PresetManager.delete_preset, src/presets.py:PresetManager.get_preset_scope, src/presets.py:PresetManager.load_all, src/presets.py:PresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.delete_profile, src/workspace_manager.py:WorkspaceManager.load_all_profiles, src/workspace_manager.py:WorkspaceManager.save_profile]
   """
   if not path.exists():
    return {}
@@ -95,8 +96,8 @@ class PersonaManager:
 
  def _save_file(self, path: Path, data: Dict[str, Any]) -> None:
   """
-  [C: src/presets.py:PresetManager.delete_preset, src/presets.py:PresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.delete_profile, src/workspace_manager.py:WorkspaceManager.save_profile]
+    [C: src/presets.py:PresetManager.delete_preset, src/presets.py:PresetManager.save_preset, src/workspace_manager.py:WorkspaceManager.delete_profile, src/workspace_manager.py:WorkspaceManager.save_profile]
   """
   path.parent.mkdir(parents=True, exist_ok=True)
   with open(path, "wb") as f:
-   tomli_w.dump(data, f)
+   tomli_w.dump(data, f)
\ No newline at end of file
diff --git a/src/presets.py b/src/presets.py
index ecb3b23..a09b5df 100644
--- a/src/presets.py
+++ b/src/presets.py
@@ -19,7 +19,8 @@ class PresetManager:
 
  def load_all(self) -> Dict[str, Preset]:
   """
-  Merges global and project presets into a single dictionary.
+  
+    Merges global and project presets into a single dictionary.
     [C: tests/test_persona_manager.py:test_delete_persona, tests/test_persona_manager.py:test_load_all_merged, tests/test_persona_manager.py:test_save_persona, tests/test_preset_manager.py:test_delete_preset, tests/test_preset_manager.py:test_load_all_merged, tests/test_preset_manager.py:test_save_preset_global, tests/test_preset_manager.py:test_save_preset_project, tests/test_presets.py:TestPresetManager.test_delete_preset, tests/test_presets.py:TestPresetManager.test_project_overwrites_global, tests/test_presets.py:TestPresetManager.test_save_and_load_global, tests/test_presets.py:TestPresetManager.test_save_and_load_project]
   """
   presets: Dict[str, Preset] = {}
@@ -45,7 +46,8 @@ class PresetManager:
 
  def save_preset(self, preset: Preset, scope: str = "project") -> None:
   """
-  Saves a preset to either the global or project-specific TOML file.
+  
+    Saves a preset to either the global or project-specific TOML file.
     [C: tests/test_preset_manager.py:test_save_preset_global, tests/test_preset_manager.py:test_save_preset_project, tests/test_preset_manager.py:test_save_preset_project_no_root, tests/test_presets.py:TestPresetManager.test_delete_preset, tests/test_presets.py:TestPresetManager.test_project_overwrites_global, tests/test_presets.py:TestPresetManager.test_save_and_load_global, tests/test_presets.py:TestPresetManager.test_save_and_load_project]
   """
   path = self.global_path if scope == "global" else self.project_path
@@ -63,7 +65,7 @@ class PresetManager:
 
  def delete_preset(self, name: str, scope: str) -> None:
   """
-  [C: tests/test_preset_manager.py:test_delete_preset, tests/test_presets.py:TestPresetManager.test_delete_preset]
+    [C: tests/test_preset_manager.py:test_delete_preset, tests/test_presets.py:TestPresetManager.test_delete_preset]
   """
   if scope == "project" and self.project_root:
    path = get_project_presets_path(self.project_root)
@@ -92,7 +94,7 @@ class PresetManager:
 
  def _load_file(self, path: Path) -> Dict[str, Any]:
   """
-  [C: src/workspace_manager.py:WorkspaceManager.delete_profile, src/workspace_manager.py:WorkspaceManager.load_all_profiles, src/workspace_manager.py:WorkspaceManager.save_profile]
+    [C: src/workspace_manager.py:WorkspaceManager.delete_profile, src/workspace_manager.py:WorkspaceManager.load_all_profiles, src/workspace_manager.py:WorkspaceManager.save_profile]
   """
   if not path.exists():
    return {"presets": {}}
@@ -110,7 +112,7 @@ class PresetManager:
 
  def _save_file(self, path: Path, data: Dict[str, Any]) -> None:
   """
-  [C: src/workspace_manager.py:WorkspaceManager.delete_profile, src/workspace_manager.py:WorkspaceManager.save_profile]
+    [C: src/workspace_manager.py:WorkspaceManager.delete_profile, src/workspace_manager.py:WorkspaceManager.save_profile]
   """
   if path.parent.exists() and path.parent.is_file():
    raise ValueError(f"Cannot save to {path}: Parent directory {path.parent} is a file.")
diff --git a/src/project_manager.py b/src/project_manager.py
index 4ca40b4..19ea059 100644
--- a/src/project_manager.py
+++ b/src/project_manager.py
@@ -30,7 +30,8 @@ def parse_ts(s: str) -> Optional[datetime.datetime]:
 
 def entry_to_str(entry: dict[str, Any]) -> str:
  """
- Serialise a disc entry dict -> stored string.
+ 
+  Serialise a disc entry dict -> stored string.
   [C: tests/test_thinking_persistence.py:test_entry_to_str_with_thinking]
  """
  ts = entry.get("ts", "")
@@ -50,7 +51,8 @@ def entry_to_str(entry: dict[str, Any]) -> str:
 
 def str_to_entry(raw: str, roles: list[str]) -> dict[str, Any]:
  """
- Parse a stored string back to a disc entry dict.
+ 
+  Parse a stored string back to a disc entry dict.
   [C: tests/test_thinking_persistence.py:test_str_to_entry_with_thinking]
  """
  ts = ""
@@ -91,13 +93,13 @@ def get_git_commit(git_dir: str) -> str:
 
 def default_discussion() -> dict[str, Any]:
  """
- [C: tests/test_discussion_takes.py:TestDiscussionTakes.test_promote_take_renames_discussion]
+  [C: tests/test_discussion_takes.py:TestDiscussionTakes.test_promote_take_renames_discussion]
  """
  return {"git_commit": "", "last_updated": now_ts(), "history": []}
 
 def default_project(name: str = "unnamed") -> dict[str, Any]:
  """
- [C: tests/test_deepseek_infra.py:test_default_project_includes_reasoning_role, tests/test_discussion_takes.py:TestDiscussionTakes.setUp, tests/test_history_management.py:test_history_persistence_across_turns, tests/test_history_management.py:test_save_separation, tests/test_project_manager_modes.py:test_default_project_execution_mode, tests/test_project_manager_modes.py:test_load_save_execution_mode, tests/test_project_serialization.py:TestProjectSerialization.test_default_roles_include_context, tests/test_project_serialization.py:TestProjectSerialization.test_fileitem_roundtrip]
+  [C: tests/test_deepseek_infra.py:test_default_project_includes_reasoning_role, tests/test_discussion_takes.py:TestDiscussionTakes.setUp, tests/test_history_management.py:test_history_persistence_across_turns, tests/test_history_management.py:test_save_separation, tests/test_project_manager_modes.py:test_default_project_execution_mode, tests/test_project_manager_modes.py:test_load_save_execution_mode, tests/test_project_serialization.py:TestProjectSerialization.test_default_roles_include_context, tests/test_project_serialization.py:TestProjectSerialization.test_fileitem_roundtrip]
  """
  return {
   "project":     {"name": name, "git_dir": "", "system_prompt": "", "execution_mode": "native"},
@@ -152,7 +154,8 @@ def default_project(name: str = "unnamed") -> dict[str, Any]:
 
 def get_history_path(project_path: Union[str, Path]) -> Path:
  """
- Return the Path to the sibling history TOML file for a given project.
+ 
+  Return the Path to the sibling history TOML file for a given project.
   [C: tests/test_history_management.py:test_save_separation]
  """
  p = Path(project_path)
@@ -161,8 +164,9 @@ def get_history_path(project_path: Union[str, Path]) -> Path:
 def load_project(path: Union[str, Path]) -> dict[str, Any]:
  """
  
-     Load a project TOML file.
-     Automatically migrates legacy 'discussion' keys to a sibling history file.
+  
+      Load a project TOML file.
+      Automatically migrates legacy 'discussion' keys to a sibling history file.
   [C: tests/test_history_management.py:test_history_persistence_across_turns, tests/test_history_management.py:test_migration_on_load, tests/test_project_manager_modes.py:test_load_save_execution_mode, tests/test_project_serialization.py:TestProjectSerialization.test_backward_compatibility_strings, tests/test_project_serialization.py:TestProjectSerialization.test_fileitem_roundtrip]
  """
  with open(path, "rb") as f:
@@ -185,7 +189,8 @@ def load_project(path: Union[str, Path]) -> dict[str, Any]:
 
 def load_history(project_path: Union[str, Path]) -> dict[str, Any]:
  """
- Load the segregated discussion history from its dedicated TOML file.
+ 
+  Load the segregated discussion history from its dedicated TOML file.
   [C: tests/test_thinking_persistence.py:test_save_and_load_history_with_thinking_segments]
  """
  hist_path = get_history_path(project_path)
@@ -196,7 +201,8 @@ def load_history(project_path: Union[str, Path]) -> dict[str, Any]:
 
 def clean_nones(data: Any) -> Any:
  """
- Recursively remove None values from a dictionary/list.
+ 
+  Recursively remove None values from a dictionary/list.
   [C: tests/test_thinking_persistence.py:test_clean_nones_removes_thinking]
  """
  if isinstance(data, dict):
@@ -208,8 +214,9 @@ def clean_nones(data: Any) -> Any:
 def save_project(proj: dict[str, Any], path: Union[str, Path], disc_data: Optional[dict[str, Any]] = None) -> None:
  """
  
-     Save the project TOML.
-     If 'discussion' is present in proj, it is moved to the sibling history file.
+  
+      Save the project TOML.
+      If 'discussion' is present in proj, it is moved to the sibling history file.
   [C: tests/test_history_management.py:test_history_persistence_across_turns, tests/test_history_management.py:test_save_separation, tests/test_project_manager_modes.py:test_load_save_execution_mode, tests/test_project_serialization.py:TestProjectSerialization.test_fileitem_roundtrip, tests/test_thinking_persistence.py:test_save_and_load_history_with_thinking_segments]
  """
  proj = clean_nones(proj)
@@ -270,7 +277,8 @@ def flat_config(proj: dict[str, Any], disc_name: Optional[str] = None, track_id:
 
 def save_context_preset(project_dict: dict, preset_name: str, files: list[str], screenshots: list[str]) -> None:
  """
- Save a named context preset (files + screenshots) into the project dict.
+ 
+  Save a named context preset (files + screenshots) into the project dict.
   [C: tests/test_context_presets.py:test_save_context_preset]
  """
  if "context_presets" not in project_dict:
@@ -282,7 +290,8 @@ def save_context_preset(project_dict: dict, preset_name: str, files: list[str],
 
 def load_context_preset(project_dict: dict, preset_name: str) -> dict:
  """
- Return the files and screenshots for a named preset.
+ 
+  Return the files and screenshots for a named preset.
   [C: tests/test_context_presets.py:test_load_context_preset, tests/test_context_presets.py:test_load_nonexistent_preset]
  """
  if "context_presets" not in project_dict or preset_name not in project_dict["context_presets"]:
@@ -291,7 +300,8 @@ def load_context_preset(project_dict: dict, preset_name: str) -> dict:
 
 def delete_context_preset(project_dict: dict, preset_name: str) -> None:
  """
- Remove a named preset if it exists.
+ 
+  Remove a named preset if it exists.
   [C: tests/test_context_presets.py:test_delete_context_preset, tests/test_context_presets.py:test_delete_nonexistent_preset_no_error]
  """
  if "context_presets" in project_dict:
@@ -301,7 +311,8 @@ def delete_context_preset(project_dict: dict, preset_name: str) -> None:
 def save_track_state(track_id: str, state: 'TrackState', base_dir: Union[str, Path] = ".") -> None:
  """
  
-     Saves a TrackState object to conductor/tracks/<track_id>/state.toml.
+  
+      Saves a TrackState object to conductor/tracks/<track_id>/state.toml.
   [C: tests/test_project_manager_tracks.py:test_get_all_tracks_with_state, tests/test_track_state_persistence.py:test_track_state_persistence]
  """
  track_dir = paths.get_track_state_dir(track_id, project_path=str(base_dir))
@@ -314,7 +325,8 @@ def save_track_state(track_id: str, state: 'TrackState', base_dir: Union[str, Pa
 def load_track_state(track_id: str, base_dir: Union[str, Path] = ".") -> Optional['TrackState']:
  """
  
-     Loads a TrackState object from conductor/tracks/<track_id>/state.toml.
+  
+      Loads a TrackState object from conductor/tracks/<track_id>/state.toml.
   [C: tests/test_track_state_persistence.py:test_track_state_persistence]
  """
  from src.models import TrackState
@@ -328,8 +340,9 @@ def load_track_state(track_id: str, base_dir: Union[str, Path] = ".") -> Optiona
 def load_track_history(track_id: str, base_dir: Union[str, Path] = ".") -> list[str]:
  """
  
-     Loads the discussion history for a specific track from its state.toml.
-     Returns a list of entry strings formatted with @timestamp.
+  
+      Loads the discussion history for a specific track from its state.toml.
+      Returns a list of entry strings formatted with @timestamp.
  """
  state = load_track_state(track_id, base_dir)
  if not state:
@@ -346,8 +359,9 @@ def load_track_history(track_id: str, base_dir: Union[str, Path] = ".") -> list[
 def save_track_history(track_id: str, history: list[str], base_dir: Union[str, Path] = ".") -> None:
  """
  
-     Saves the discussion history for a specific track to its state.toml.
-     'history' is expected to be a list of formatted strings.
+  
+      Saves the discussion history for a specific track to its state.toml.
+      'history' is expected to be a list of formatted strings.
  """
  state = load_track_state(track_id, base_dir)
  if not state:
@@ -360,11 +374,12 @@ def save_track_history(track_id: str, history: list[str], base_dir: Union[str, P
 def get_all_tracks(base_dir: Union[str, Path] = ".") -> list[dict[str, Any]]:
  """
  
-     Scans the conductor/tracks/ directory and returns a list of dictionaries
-     containing track metadata: 'id', 'title', 'status', 'complete', 'total',
-     and 'progress' (0.0 to 1.0).
-     Handles missing or malformed metadata.json or state.toml by falling back
-     to available info or defaults.
+  
+      Scans the conductor/tracks/ directory and returns a list of dictionaries
+      containing track metadata: 'id', 'title', 'status', 'complete', 'total',
+      and 'progress' (0.0 to 1.0).
+      Handles missing or malformed metadata.json or state.toml by falling back
+      to available info or defaults.
   [C: tests/test_project_manager_tracks.py:test_get_all_tracks_empty, tests/test_project_manager_tracks.py:test_get_all_tracks_malformed, tests/test_project_manager_tracks.py:test_get_all_tracks_with_metadata_json, tests/test_project_manager_tracks.py:test_get_all_tracks_with_state, tests/test_project_paths.py:test_get_all_tracks_project_specific]
  """
  tracks_dir = paths.get_tracks_dir(project_path=str(base_dir))
@@ -428,8 +443,9 @@ def get_all_tracks(base_dir: Union[str, Path] = ".") -> list[dict[str, Any]]:
 def calculate_track_progress(tickets: list) -> dict:
  """
  
-  Calculates track progress based on ticket statuses.
-  percentage (float), completed (int), total (int), in_progress (int), blocked (int), todo (int)
+  
+   Calculates track progress based on ticket statuses.
+   percentage (float), completed (int), total (int), in_progress (int), blocked (int), todo (int)
   [C: tests/test_progress_viz.py:test_calculate_track_progress_all_completed, tests/test_progress_viz.py:test_calculate_track_progress_all_todo, tests/test_progress_viz.py:test_calculate_track_progress_empty, tests/test_progress_viz.py:test_calculate_track_progress_mixed]
  """
  total = len(tickets)
@@ -463,8 +479,9 @@ def calculate_track_progress(tickets: list) -> dict:
 def branch_discussion(project_dict: dict, source_id: str, new_id: str, message_index: int) -> None:
  """
  
-  Creates a new discussion in project_dict['discussion']['discussions'] by copying 
-  the history from source_id up to (and including) message_index, and sets active to new_id.
+  
+   Creates a new discussion in project_dict['discussion']['discussions'] by copying 
+   the history from source_id up to (and including) message_index, and sets active to new_id.
   [C: tests/test_discussion_takes.py:TestDiscussionTakes.test_branch_discussion_creates_new_take]
  """
  if "discussion" not in project_dict or "discussions" not in project_dict["discussion"]:
@@ -483,7 +500,8 @@ def branch_discussion(project_dict: dict, source_id: str, new_id: str, message_i
 
 def promote_take(project_dict: dict, take_id: str, new_id: str) -> None:
  """
- Renames a take_id to new_id in the discussions dict.
+ 
+  Renames a take_id to new_id in the discussions dict.
   [C: tests/test_discussion_takes.py:TestDiscussionTakes.test_promote_take_renames_discussion]
  """
  if "discussion" not in project_dict or "discussions" not in project_dict["discussion"]:
diff --git a/src/rag_engine.py b/src/rag_engine.py
index ae010ab..13da532 100644
--- a/src/rag_engine.py
+++ b/src/rag_engine.py
@@ -108,7 +108,7 @@ class RAGEngine:
 
     def add_documents(self, ids: List[str], texts: List[str], metadatas: Optional[List[Dict[str, Any]]] = None):
         """
-        [C: tests/test_rag_engine.py:test_rag_engine_chroma]
+                [C: tests/test_rag_engine.py:test_rag_engine_chroma]
         """
         if not self.config.enabled or self.collection == "mock":
             return
@@ -215,7 +215,7 @@ class RAGEngine:
 
     def search(self, query: str, top_k: int = 5) -> List[Dict[str, Any]]:
         """
-        [C: tests/mock_concurrent_mma.py:main, tests/test_rag_engine.py:test_rag_engine_chroma]
+                [C: tests/mock_concurrent_mma.py:main, tests/test_rag_engine.py:test_rag_engine_chroma]
         """
         if not self.config.enabled:
             return []
@@ -243,7 +243,7 @@ class RAGEngine:
 
     def delete_documents(self, ids: List[str]):
         """
-        [C: tests/test_rag_engine.py:test_rag_engine_chroma]
+                [C: tests/test_rag_engine.py:test_rag_engine_chroma]
         """
         if not self.config.enabled or self.collection == "mock":
             return
diff --git a/src/session_logger.py b/src/session_logger.py
index 7aeeb7d..c42164b 100644
--- a/src/session_logger.py
+++ b/src/session_logger.py
@@ -44,8 +44,9 @@ def _now_ts() -> str:
 def open_session(label: Optional[str] = None) -> None:
  """
  
-     Called once at GUI startup.  Creates the log directories if needed and
-     opens the log files for this session within a sub-directory.
+  
+      Called once at GUI startup.  Creates the log directories if needed and
+      opens the log files for this session within a sub-directory.
   [C: tests/test_app_controller_offloading.py:tmp_session_dir, tests/test_logging_e2e.py:test_logging_e2e, tests/test_session_logger_optimization.py:test_log_tool_call_saves_in_session_scripts, tests/test_session_logger_optimization.py:test_log_tool_output_saves_in_session_outputs, tests/test_session_logger_optimization.py:test_session_directory_and_subdirectories_creation, tests/test_session_logger_reset.py:test_reset_session, tests/test_session_logging.py:test_open_session_creates_subdir_and_registry]
  """
  global _ts, _session_id, _session_dir, _comms_fh, _tool_fh, _api_fh, _cli_fh, _seq, _output_seq
@@ -89,7 +90,8 @@ def open_session(label: Optional[str] = None) -> None:
 
 def close_session() -> None:
  """
- Flush and close all log files. Called on clean exit.
+ 
+  Flush and close all log files. Called on clean exit.
   [C: tests/test_app_controller_offloading.py:tmp_session_dir, tests/test_logging_e2e.py:e2e_setup, tests/test_logging_e2e.py:test_logging_e2e, tests/test_session_logger_optimization.py:temp_session_setup, tests/test_session_logger_reset.py:temp_logs, tests/test_session_logging.py:temp_logs]
  """
  global _comms_fh, _tool_fh, _api_fh, _cli_fh, _session_id
@@ -136,8 +138,9 @@ def log_api_hook(method: str, path: str, payload: str) -> None:
 def log_comms(entry: dict[str, Any]) -> None:
  """
  
-     Append one comms entry to the comms log file as a JSON-L line.
-     Thread-safe (GIL + line-buffered file).
+  
+      Append one comms entry to the comms log file as a JSON-L line.
+      Thread-safe (GIL + line-buffered file).
   [C: tests/test_logging_e2e.py:test_logging_e2e]
  """
  if _comms_fh is None:
@@ -150,8 +153,9 @@ def log_comms(entry: dict[str, Any]) -> None:
 def log_tool_call(script: str, result: str, script_path: Optional[str]) -> Optional[str]:
  """
  
-     Append a tool-call record to the toolcalls log and write the PS1 script to
-     the session's scripts directory. Returns the path of the written script file.
+  
+      Append a tool-call record to the toolcalls log and write the PS1 script to
+      the session's scripts directory. Returns the path of the written script file.
   [C: tests/test_session_logger_optimization.py:test_log_tool_call_saves_in_session_scripts]
  """
  global _seq
@@ -194,8 +198,9 @@ def log_tool_call(script: str, result: str, script_path: Optional[str]) -> Optio
 def log_tool_output(content: str) -> Optional[str]:
  """
  
-     Save tool output content to a unique file in the session's outputs directory.
-     Returns the path of the written file.
+  
+      Save tool output content to a unique file in the session's outputs directory.
+      Returns the path of the written file.
   [C: tests/test_session_logger_optimization.py:test_log_tool_output_returns_none_if_no_session, tests/test_session_logger_optimization.py:test_log_tool_output_saves_in_session_outputs]
  """
  global _output_seq
@@ -232,4 +237,4 @@ def log_cli_call(command: str, stdin_content: Optional[str], stdout_content: Opt
   _cli_fh.write(json.dumps(log_data, ensure_ascii=False, default=str) + "\n")
   _cli_fh.flush()
  except Exception:
-  pass
+  pass
\ No newline at end of file
diff --git a/src/shaders.py b/src/shaders.py
index 54eae2d..8bb81bd 100644
--- a/src/shaders.py
+++ b/src/shaders.py
@@ -3,8 +3,9 @@ from imgui_bundle import imgui
 def draw_soft_shadow(draw_list: imgui.ImDrawList, p_min: imgui.ImVec2, p_max: imgui.ImVec2, color: imgui.ImVec4, shadow_size: float = 10.0, rounding: float = 0.0) -> None:
  """
  
-  Simulates a soft shadow effect by drawing multiple concentric rounded rectangles
-  with decreasing alpha values. This is a faux-shader effect using primitive batching.
+  
+   Simulates a soft shadow effect by drawing multiple concentric rounded rectangles
+   with decreasing alpha values. This is a faux-shader effect using primitive batching.
  """
  r, g, b, a = color.x, color.y, color.z, color.w
  steps = int(shadow_size)
@@ -35,4 +36,4 @@ def draw_soft_shadow(draw_list: imgui.ImDrawList, p_min: imgui.ImVec2, p_max: im
    rounding + expand if rounding > 0 else 0.0, 
    flags=imgui.ImDrawFlags_.round_corners_all if rounding > 0 else imgui.ImDrawFlags_.none,
    thickness=1.0
-  )
+  )
\ No newline at end of file
diff --git a/src/shell_runner.py b/src/shell_runner.py
index f91dba3..bbd2b1b 100644
--- a/src/shell_runner.py
+++ b/src/shell_runner.py
@@ -54,12 +54,13 @@ def _build_subprocess_env() -> dict[str, str]:
 def run_powershell(script: str, base_dir: str, qa_callback: Optional[Callable[[str], str]] = None, patch_callback: Optional[Callable[[str, str], Optional[str]]] = None) -> str:
  """
  
-     Run a PowerShell script with working directory set to base_dir.
-     Returns a string combining stdout, stderr, and exit code.
-     Environment is configured via mcp_env.toml (project root).
-     If qa_callback is provided and the command fails or has stderr,
-     the callback is called with the stderr content and its result is appended.
-     If patch_callback is provided, it receives (error, file_context) and returns patch text.
+  
+      Run a PowerShell script with working directory set to base_dir.
+      Returns a string combining stdout, stderr, and exit code.
+      Environment is configured via mcp_env.toml (project root).
+      If qa_callback is provided and the command fails or has stderr,
+      the callback is called with the stderr content and its result is appended.
+      If patch_callback is provided, it receives (error, file_context) and returns patch text.
   [C: tests/test_tier4_interceptor.py:test_run_powershell_no_qa_callback_on_success, tests/test_tier4_interceptor.py:test_run_powershell_optional_qa_callback, tests/test_tier4_interceptor.py:test_run_powershell_qa_callback_on_failure, tests/test_tier4_interceptor.py:test_run_powershell_qa_callback_on_stderr_only]
  """
  safe_dir: str = str(base_dir).replace("'", "''")
@@ -98,4 +99,4 @@ def run_powershell(script: str, base_dir: str, qa_callback: Optional[Callable[[s
  except Exception as e:
   if 'process' in locals() and process:
    subprocess.run(["taskkill", "/F", "/T", "/PID", str(process.pid)], capture_output=True)
-  return f"ERROR: {e}"
+  return f"ERROR: {e}"
\ No newline at end of file
diff --git a/src/summarize.py b/src/summarize.py
index f5c3e19..8abd33e 100644
--- a/src/summarize.py
+++ b/src/summarize.py
@@ -154,8 +154,9 @@ _SUMMARISERS: dict[str, Callable[[Path, str], str]] = {
 def summarise_file(path: Path, content: str) -> str:
  """
  
-  Return a compact markdown summary string for a single file.
-  `content` is the already-read file text (or an error string).
+  
+   Return a compact markdown summary string for a single file.
+   `content` is the already-read file text (or an error string).
   [C: tests/test_subagent_summarization.py:test_summarise_file_integration]
  """
  content_hash = get_file_hash(content)
@@ -193,8 +194,9 @@ def summarise_file(path: Path, content: str) -> str:
 def summarise_items(file_items: list[dict[str, Any]]) -> list[dict[str, Any]]:
  """
  
-     Given a list of file_item dicts (as returned by aggregate.build_file_items),
-     return a parallel list of dicts with an added `summary` key.
+  
+      Given a list of file_item dicts (as returned by aggregate.build_file_items),
+      return a parallel list of dicts with an added `summary` key.
  """
  result = []
  for item in file_items:
@@ -212,8 +214,9 @@ def summarise_items(file_items: list[dict[str, Any]]) -> list[dict[str, Any]]:
 def build_summary_markdown(file_items: list[dict[str, Any]]) -> str:
  """
  
-     Build a compact markdown string of file summaries, suitable for the
-     initial <context> block instead of full file contents.
+  
+      Build a compact markdown string of file summaries, suitable for the
+      initial <context> block instead of full file contents.
  """
  summarised = summarise_items(file_items)
  parts = []
@@ -221,4 +224,4 @@ def build_summary_markdown(file_items: list[dict[str, Any]]) -> str:
   path = item.get("path") or item.get("entry", "unknown")
   summary = item.get("summary", "")
   parts.append(f"### `{path}`\n\n{summary}")
- return "\n\n---\n\n".join(parts)
+ return "\n\n---\n\n".join(parts)
\ No newline at end of file
diff --git a/src/summary_cache.py b/src/summary_cache.py
index 06158c6..8b326a6 100644
--- a/src/summary_cache.py
+++ b/src/summary_cache.py
@@ -5,7 +5,8 @@ from typing import Optional, Dict
 
 def get_file_hash(content: str) -> str:
  """
- Returns SHA256 hash of the content.
+ 
+  Returns SHA256 hash of the content.
   [C: tests/test_summary_cache.py:test_get_file_hash, tests/test_summary_cache.py:test_summary_cache]
  """
  return hashlib.sha256(content.encode("utf-8")).hexdigest()
@@ -13,8 +14,9 @@ def get_file_hash(content: str) -> str:
 class SummaryCache:
  """
  
-     A hash-based cache for file summaries to avoid redundant processing.
-     Invalidates when content hash changes.
+  
+      A hash-based cache for file summaries to avoid redundant processing.
+      Invalidates when content hash changes.
  """
  def __init__(self, cache_file: Optional[str] = None, max_entries: int = 1000):
   if cache_file:
@@ -28,8 +30,9 @@ class SummaryCache:
 
  def load(self) -> None:
   """
-  Loads cache from disk.
-    [C: src/tool_presets.py:ToolPresetManager._read_raw, src/workspace_manager.py:WorkspaceManager._load_file, tests/test_gui_phase3.py:test_create_track, tests/test_history_management.py:test_save_separation, tests/test_saved_presets_sim.py:test_preset_manager_modal, tests/test_session_logging.py:test_open_session_creates_subdir_and_registry, tests/test_visual_sim_gui_ux.py:test_gui_track_creation]
+  
+    Loads cache from disk.
+    [C: src/tool_presets.py:ToolPresetManager._read_raw, src/workspace_manager.py:WorkspaceManager._load_file, tests/test_gui_phase3.py:test_create_track, tests/test_history_management.py:test_save_separation, tests/test_session_logging.py:test_open_session_creates_subdir_and_registry]
   """
   if self.cache_file.exists():
    try:
@@ -49,7 +52,8 @@ class SummaryCache:
 
  def get_summary(self, file_path: str, content_hash: str) -> Optional[str]:
   """
-  Returns cached summary if hash matches, otherwise None.
+  
+    Returns cached summary if hash matches, otherwise None.
     [C: tests/test_summary_cache.py:test_summary_cache, tests/test_summary_cache.py:test_summary_cache_lru]
   """
   entry = self.cache.get(file_path)
@@ -62,7 +66,8 @@ class SummaryCache:
 
  def set_summary(self, file_path: str, content_hash: str, summary: str) -> None:
   """
-  Stores summary in cache and saves to disk.
+  
+    Stores summary in cache and saves to disk.
     [C: tests/test_summary_cache.py:test_summary_cache, tests/test_summary_cache.py:test_summary_cache_lru]
   """
   if file_path in self.cache:
@@ -80,7 +85,8 @@ class SummaryCache:
 
  def clear(self) -> None:
   """
-  Clears the cache both in-memory and on disk.
+  
+    Clears the cache both in-memory and on disk.
     [C: tests/conftest.py:reset_ai_client]
   """
   self.cache.clear()
diff --git a/src/synthesis_formatter.py b/src/synthesis_formatter.py
index 38bb85f..9155791 100644
--- a/src/synthesis_formatter.py
+++ b/src/synthesis_formatter.py
@@ -1,6 +1,6 @@
 def format_takes_diff(takes: dict[str, list[dict]]) -> str:
  """
- [C: tests/test_synthesis_formatter.py:test_format_takes_diff_common_prefix, tests/test_synthesis_formatter.py:test_format_takes_diff_empty, tests/test_synthesis_formatter.py:test_format_takes_diff_no_common_prefix, tests/test_synthesis_formatter.py:test_format_takes_diff_single_take]
+  [C: tests/test_synthesis_formatter.py:test_format_takes_diff_common_prefix, tests/test_synthesis_formatter.py:test_format_takes_diff_empty, tests/test_synthesis_formatter.py:test_format_takes_diff_no_common_prefix, tests/test_synthesis_formatter.py:test_format_takes_diff_single_take]
  """
  if not takes:
   return ""
diff --git a/src/theme_2.py b/src/theme_2.py
index e458390..f33dd63 100644
--- a/src/theme_2.py
+++ b/src/theme_2.py
@@ -23,7 +23,8 @@ from src.theme_nerv_fx import CRTFilter, AlertPulsing, StatusFlicker
 
 def _c(r: int, g: int, b: int, a: int = 255) -> tuple[float, float, float, float]:
  """
- Convert 0-255 RGBA to 0.0-1.0 floats.
+ 
+  Convert 0-255 RGBA to 0.0-1.0 floats.
   [C: src/theme_nerv.py:module]
  """
  return (r / 255.0, g / 255.0, b / 255.0, a / 255.0)
@@ -283,7 +284,9 @@ def set_child_transparency(val: float) -> None:
 def apply(palette_name: str) -> None:
  """
  
-     Apply a named palette by setting all ImGui style colors and applying global professional styling.
+  
+      Apply a named palette by setting all ImGui style colors and applying global professional styling.
+  [C: tests/test_theme.py:test_theme_apply_sets_rounding_and_padding]
  """
  global _current_palette
  _current_palette = palette_name
@@ -420,4 +423,4 @@ def render_post_fx(width: float, height: float, ai_status: str, crt_enabled: boo
  _alert_pulsing.update(ai_status)
  _alert_pulsing.render(width, height)
  _crt_filter.enabled = crt_enabled
- _crt_filter.render(width, height)
+ _crt_filter.render(width, height)
\ No newline at end of file
diff --git a/src/theme_nerv.py b/src/theme_nerv.py
index 3faab4b..a082eb6 100644
--- a/src/theme_nerv.py
+++ b/src/theme_nerv.py
@@ -63,7 +63,8 @@ NERV_PALETTE = {
 
 def apply_nerv() -> None:
  """
- Apply NERV theme with hard edges and specific palette.
+ 
+  Apply NERV theme with hard edges and specific palette.
   [C: tests/test_theme_nerv.py:test_apply_nerv_sets_rounding_and_colors]
  """
  style = imgui.get_style()
@@ -84,4 +85,4 @@ def apply_nerv() -> None:
  style.frame_border_size = 1.0
  style.popup_border_size = 1.0
  style.child_border_size = 1.0
- style.tab_border_size = 1.0
+ style.tab_border_size = 1.0
\ No newline at end of file
diff --git a/src/theme_nerv_fx.py b/src/theme_nerv_fx.py
index be67f0f..c952d91 100644
--- a/src/theme_nerv_fx.py
+++ b/src/theme_nerv_fx.py
@@ -9,7 +9,7 @@ class CRTFilter:
 
  def render(self, width: float, height: float):
   """
-  [C: tests/test_theme_nerv_alert.py:test_alert_pulsing_render_active, tests/test_theme_nerv_alert.py:test_alert_pulsing_render_inactive, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_alert_pulsing_render, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_disabled, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_render]
+    [C: tests/test_theme_nerv_alert.py:test_alert_pulsing_render_active, tests/test_theme_nerv_alert.py:test_alert_pulsing_render_inactive, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_alert_pulsing_render, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_disabled, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_render]
   """
   if not self.enabled:
    return
@@ -68,7 +68,7 @@ class StatusFlicker:
  def get_alpha(self) -> float:
   # Modulate between 0.7 and 1.0 using sin wave
   """
-  [C: tests/test_theme_nerv_fx.py:TestThemeNervFx.test_status_flicker_get_alpha]
+    [C: tests/test_theme_nerv_fx.py:TestThemeNervFx.test_status_flicker_get_alpha]
   """
   return 0.85 + 0.15 * math.sin(time.time() * 20.0)
 
@@ -78,13 +78,13 @@ class AlertPulsing:
 
  def update(self, status: str):
   """
-  [C: tests/test_spawn_interception_v2.py:MockDialog.wait, tests/test_theme_nerv_alert.py:test_alert_pulsing_update, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_alert_pulsing_update]
+    [C: tests/test_spawn_interception_v2.py:MockDialog.wait, tests/test_theme_nerv_alert.py:test_alert_pulsing_update, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_alert_pulsing_update]
   """
   self.active = status.lower().startswith("error")
 
  def render(self, width: float, height: float):
   """
-  [C: tests/test_theme_nerv_alert.py:test_alert_pulsing_render_active, tests/test_theme_nerv_alert.py:test_alert_pulsing_render_inactive, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_alert_pulsing_render, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_disabled, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_render]
+    [C: tests/test_theme_nerv_alert.py:test_alert_pulsing_render_active, tests/test_theme_nerv_alert.py:test_alert_pulsing_render_inactive, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_alert_pulsing_render, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_disabled, tests/test_theme_nerv_fx.py:TestThemeNervFx.test_crt_filter_render]
   """
   if not self.active:
    return
@@ -94,4 +94,4 @@ class AlertPulsing:
   # multiply by (0.2 - 0.05) = 0.15 and add 0.05
   alpha = 0.05 + 0.15 * ((math.sin(time.time() * 4.0) + 1.0) / 2.0)
   color = imgui.get_color_u32((1.0, 0.0, 0.0, alpha))
-  draw_list.add_rect((0.0, 0.0), (width, height), color, 0.0, 0, 10.0)
+  draw_list.add_rect((0.0, 0.0), (width, height), color, 0.0, 0, 10.0)
\ No newline at end of file
diff --git a/src/thinking_parser.py b/src/thinking_parser.py
index 827d230..07a8fc0 100644
--- a/src/thinking_parser.py
+++ b/src/thinking_parser.py
@@ -5,9 +5,10 @@ from src.models import ThinkingSegment
 def parse_thinking_trace(text: str) -> Tuple[List[ThinkingSegment], str]:
  """
  
-  Parses thinking segments from text and returns (segments, response_content).
-  Support extraction of thinking traces from <thinking>...</thinking>, <thought>...</thought>,
-  and blocks prefixed with Thinking:.
+  
+   Parses thinking segments from text and returns (segments, response_content).
+   Support extraction of thinking traces from <thinking>...</thinking>, <thought>...</thought>,
+   and blocks prefixed with Thinking:.
   [C: tests/test_thinking_trace.py:test_parse_empty_response, tests/test_thinking_trace.py:test_parse_multiple_markers, tests/test_thinking_trace.py:test_parse_no_thinking, tests/test_thinking_trace.py:test_parse_text_thinking_prefix, tests/test_thinking_trace.py:test_parse_thinking_with_empty_response, tests/test_thinking_trace.py:test_parse_xml_thinking_tag, tests/test_thinking_trace.py:test_parse_xml_thought_tag]
  """
  segments = []
diff --git a/src/tool_bias.py b/src/tool_bias.py
index 82c261d..024377e 100644
--- a/src/tool_bias.py
+++ b/src/tool_bias.py
@@ -4,7 +4,7 @@ from src.models import Tool, ToolPreset, BiasProfile
 class ToolBiasEngine:
  def apply_semantic_nudges(self, tool_definitions: List[Dict[str, Any]], preset: ToolPreset) -> List[Dict[str, Any]]:
   """
-  [C: tests/test_tool_bias.py:test_apply_semantic_nudges, tests/test_tool_bias.py:test_parameter_bias_nudging]
+    [C: tests/test_tool_bias.py:test_apply_semantic_nudges, tests/test_tool_bias.py:test_parameter_bias_nudging]
   """
   weight_map = {
    5: "[HIGH PRIORITY] ",
@@ -40,7 +40,7 @@ class ToolBiasEngine:
 
  def generate_tooling_strategy(self, preset: ToolPreset, global_bias: BiasProfile) -> str:
   """
-  [C: tests/test_tool_bias.py:test_generate_tooling_strategy]
+    [C: tests/test_tool_bias.py:test_generate_tooling_strategy]
   """
   lines = ["### Tooling Strategy"]
   
@@ -68,4 +68,4 @@ class ToolBiasEngine:
    for cat, mult in global_bias.category_multipliers.items():
     lines.append(f"- {cat}: {mult}x")
     
-  return "\n\n".join(lines)
+  return "\n\n".join(lines)
\ No newline at end of file
diff --git a/src/tool_presets.py b/src/tool_presets.py
index 155c286..67624eb 100644
--- a/src/tool_presets.py
+++ b/src/tool_presets.py
@@ -11,7 +11,7 @@ class ToolPresetManager:
 
  def _get_path(self, scope: str) -> Path:
   """
-  [C: src/workspace_manager.py:WorkspaceManager.delete_profile, src/workspace_manager.py:WorkspaceManager.save_profile]
+    [C: src/workspace_manager.py:WorkspaceManager.delete_profile, src/workspace_manager.py:WorkspaceManager.save_profile]
   """
   if scope == "global":
    return paths.get_global_tool_presets_path()
@@ -38,7 +38,7 @@ class ToolPresetManager:
 
  def load_all_presets(self) -> Dict[str, ToolPreset]:
   """
-  [C: tests/test_tool_preset_manager.py:test_load_all_presets_merged]
+    [C: tests/test_tool_preset_manager.py:test_load_all_presets_merged]
   """
   global_path = paths.get_global_tool_presets_path()
   global_data = self._read_raw(global_path).get("presets", {})
@@ -59,14 +59,15 @@ class ToolPresetManager:
 
  def load_all(self) -> Dict[str, ToolPreset]:
   """
-  Backward compatibility for load_all().
+  
+    Backward compatibility for load_all().
     [C: tests/test_persona_manager.py:test_delete_persona, tests/test_persona_manager.py:test_load_all_merged, tests/test_persona_manager.py:test_save_persona, tests/test_preset_manager.py:test_delete_preset, tests/test_preset_manager.py:test_load_all_merged, tests/test_preset_manager.py:test_save_preset_global, tests/test_preset_manager.py:test_save_preset_project, tests/test_presets.py:TestPresetManager.test_delete_preset, tests/test_presets.py:TestPresetManager.test_project_overwrites_global, tests/test_presets.py:TestPresetManager.test_save_and_load_global, tests/test_presets.py:TestPresetManager.test_save_and_load_project]
   """
   return self.load_all_presets()
 
  def save_preset(self, preset: ToolPreset, scope: str = "project") -> None:
   """
-  [C: tests/test_preset_manager.py:test_save_preset_global, tests/test_preset_manager.py:test_save_preset_project, tests/test_preset_manager.py:test_save_preset_project_no_root, tests/test_presets.py:TestPresetManager.test_delete_preset, tests/test_presets.py:TestPresetManager.test_project_overwrites_global, tests/test_presets.py:TestPresetManager.test_save_and_load_global, tests/test_presets.py:TestPresetManager.test_save_and_load_project]
+    [C: tests/test_preset_manager.py:test_save_preset_global, tests/test_preset_manager.py:test_save_preset_project, tests/test_preset_manager.py:test_save_preset_project_no_root, tests/test_presets.py:TestPresetManager.test_delete_preset, tests/test_presets.py:TestPresetManager.test_project_overwrites_global, tests/test_presets.py:TestPresetManager.test_save_and_load_global, tests/test_presets.py:TestPresetManager.test_save_and_load_project]
   """
   path = self._get_path(scope)
   data = self._read_raw(path)
@@ -77,7 +78,7 @@ class ToolPresetManager:
 
  def delete_preset(self, name: str, scope: str = "project") -> None:
   """
-  [C: tests/test_preset_manager.py:test_delete_preset, tests/test_presets.py:TestPresetManager.test_delete_preset]
+    [C: tests/test_preset_manager.py:test_delete_preset, tests/test_presets.py:TestPresetManager.test_delete_preset]
   """
   path = self._get_path(scope)
   data = self._read_raw(path)
@@ -87,7 +88,7 @@ class ToolPresetManager:
 
  def load_all_bias_profiles(self) -> Dict[str, BiasProfile]:
   """
-  [C: tests/test_tool_preset_manager.py:test_bias_profiles_merged, tests/test_tool_preset_manager.py:test_delete_bias_profile, tests/test_tool_preset_manager.py:test_save_bias_profile]
+    [C: tests/test_tool_preset_manager.py:test_bias_profiles_merged, tests/test_tool_preset_manager.py:test_delete_bias_profile, tests/test_tool_preset_manager.py:test_save_bias_profile]
   """
   global_path = paths.get_global_tool_presets_path()
   global_data = self._read_raw(global_path).get("bias_profiles", {})
@@ -114,7 +115,7 @@ class ToolPresetManager:
 
  def save_bias_profile(self, profile: BiasProfile, scope: str = "project") -> None:
   """
-  [C: tests/test_tool_preset_manager.py:test_save_bias_profile]
+    [C: tests/test_tool_preset_manager.py:test_save_bias_profile]
   """
   path = self._get_path(scope)
   data = self._read_raw(path)
@@ -125,10 +126,10 @@ class ToolPresetManager:
 
  def delete_bias_profile(self, name: str, scope: str = "project") -> None:
   """
-  [C: tests/test_tool_preset_manager.py:test_delete_bias_profile]
+    [C: tests/test_tool_preset_manager.py:test_delete_bias_profile]
   """
   path = self._get_path(scope)
   data = self._read_raw(path)
   if "bias_profiles" in data and name in data["bias_profiles"]:
    del data["bias_profiles"][name]
-   self._write_raw(path, data)
+   self._write_raw(path, data)
\ No newline at end of file
diff --git a/src/workspace_manager.py b/src/workspace_manager.py
index 6cd915c..7496681 100644
--- a/src/workspace_manager.py
+++ b/src/workspace_manager.py
@@ -26,7 +26,8 @@ class WorkspaceManager:
 
  def load_all_profiles(self) -> Dict[str, WorkspaceProfile]:
   """
-  Merges global and project profiles into a single dictionary.
+  
+    Merges global and project profiles into a single dictionary.
     [C: tests/test_workspace_manager.py:test_delete_profile, tests/test_workspace_manager.py:test_load_all_profiles_merged, tests/test_workspace_manager.py:test_save_profile_global_and_project]
   """
   profiles = {}
@@ -46,7 +47,7 @@ class WorkspaceManager:
 
  def save_profile(self, profile: WorkspaceProfile, scope: str = "project") -> None:
   """
-  [C: tests/test_workspace_manager.py:test_delete_profile, tests/test_workspace_manager.py:test_save_profile_global_and_project]
+    [C: tests/test_workspace_manager.py:test_delete_profile, tests/test_workspace_manager.py:test_save_profile_global_and_project]
   """
   path = self._get_path(scope)
   data = self._load_file(path)
@@ -58,7 +59,7 @@ class WorkspaceManager:
 
  def delete_profile(self, name: str, scope: str = "project") -> None:
   """
-  [C: tests/test_workspace_manager.py:test_delete_profile]
+    [C: tests/test_workspace_manager.py:test_delete_profile]
   """
   path = self._get_path(scope)
   data = self._load_file(path)
diff --git a/tests/conftest.py b/tests/conftest.py
index aa19741..372e150 100644
--- a/tests/conftest.py
+++ b/tests/conftest.py
@@ -36,7 +36,7 @@ class VerificationLogger:
 
  def log_state(self, field: str, before: Any, after: Any) -> None:
   """
-  [C: tests/test_ai_style_formatter.py:test_multiple_top_level_definitions, tests/test_conductor_engine_v2.py:test_conductor_engine_dynamic_parsing_and_execution, tests/test_conductor_engine_v2.py:test_conductor_engine_run_executes_tickets_in_order, tests/test_conductor_tech_lead.py:test_topological_sort_vlog, tests/test_headless_verification.py:test_headless_verification_error_and_qa_interceptor, tests/test_headless_verification.py:test_headless_verification_full_run, tests/test_tier4_interceptor.py:test_run_powershell_qa_callback_on_failure, tests/test_vlogger_availability.py:test_vlogger_available]
+    [C: tests/test_ai_style_formatter.py:test_multiple_top_level_definitions, tests/test_conductor_engine_v2.py:test_conductor_engine_dynamic_parsing_and_execution, tests/test_conductor_engine_v2.py:test_conductor_engine_run_executes_tickets_in_order, tests/test_conductor_tech_lead.py:test_topological_sort_vlog, tests/test_headless_verification.py:test_headless_verification_error_and_qa_interceptor, tests/test_headless_verification.py:test_headless_verification_full_run, tests/test_tier4_interceptor.py:test_run_powershell_qa_callback_on_failure, tests/test_vlogger_availability.py:test_vlogger_available]
   """
   delta = ""
   if isinstance(before, (int, float)) and isinstance(after, (int, float)):
@@ -51,7 +51,7 @@ class VerificationLogger:
 
  def finalize(self, title: str, status: str, result_msg: str) -> None:
   """
-  [C: tests/test_ai_style_formatter.py:test_multiple_top_level_definitions, tests/test_conductor_engine_v2.py:test_conductor_engine_dynamic_parsing_and_execution, tests/test_conductor_engine_v2.py:test_conductor_engine_run_executes_tickets_in_order, tests/test_conductor_tech_lead.py:test_topological_sort_vlog, tests/test_headless_verification.py:test_headless_verification_error_and_qa_interceptor, tests/test_headless_verification.py:test_headless_verification_full_run, tests/test_tier4_interceptor.py:test_end_to_end_tier4_integration, tests/test_tier4_interceptor.py:test_run_powershell_qa_callback_on_failure, tests/test_tier4_interceptor.py:test_run_powershell_qa_callback_on_stderr_only, tests/test_vlogger_availability.py:test_vlogger_available]
+    [C: tests/test_ai_style_formatter.py:test_multiple_top_level_definitions, tests/test_conductor_engine_v2.py:test_conductor_engine_dynamic_parsing_and_execution, tests/test_conductor_engine_v2.py:test_conductor_engine_run_executes_tickets_in_order, tests/test_conductor_tech_lead.py:test_topological_sort_vlog, tests/test_headless_verification.py:test_headless_verification_error_and_qa_interceptor, tests/test_headless_verification.py:test_headless_verification_full_run, tests/test_tier4_interceptor.py:test_end_to_end_tier4_integration, tests/test_tier4_interceptor.py:test_run_powershell_qa_callback_on_failure, tests/test_tier4_interceptor.py:test_run_powershell_qa_callback_on_stderr_only, tests/test_vlogger_availability.py:test_vlogger_available]
   """
   round(time.time() - self.start_time, 2)
   log_file = self.logs_dir / f"{self.script_name}.txt"
@@ -71,7 +71,8 @@ class VerificationLogger:
 def reset_paths() -> Generator[None, None, None]:
  """
  
-  Autouse fixture that resets the paths global state before each test.
+  
+   Autouse fixture that resets the paths global state before each test.
  """
  from src import paths
  paths.reset_resolved()
@@ -82,8 +83,9 @@ def reset_paths() -> Generator[None, None, None]:
 def reset_ai_client() -> Generator[None, None, None]:
  """
  
-  Autouse fixture that resets the ai_client global state before each test.
-  This is critical for preventing state pollution between tests.
+  
+   Autouse fixture that resets the ai_client global state before each test.
+   This is critical for preventing state pollution between tests.
  """
  from src import ai_client
  from src import mcp_client
@@ -131,7 +133,8 @@ def kill_process_tree(pid: int | None) -> None:
 def mock_app() -> Generator[App, None, None]:
  """
  
-  Mock version of the App for simple unit tests that don't need a loop.
+  
+   Mock version of the App for simple unit tests that don't need a loop.
  """
  with (
   patch('src.models.load_config', return_value={
@@ -163,8 +166,9 @@ def mock_app() -> Generator[App, None, None]:
 def app_instance() -> Generator[App, None, None]:
  """
  
-  Centralized App instance with all external side effects mocked.
-  Matches the pattern used in test_token_viz.py and test_gui_phase4.py.
+  
+   Centralized App instance with all external side effects mocked.
+   Matches the pattern used in test_token_viz.py and test_gui_phase4.py.
   [C: tests/test_gui2_events.py:test_app_subscribes_to_events]
  """
  with (
@@ -199,8 +203,9 @@ def app_instance() -> Generator[App, None, None]:
 def live_gui() -> Generator[tuple[subprocess.Popen, str], None, None]:
  """
  
-     Session-scoped fixture that starts sloppy.py with --enable-test-hooks.
-     Includes high-signal environment telemetry and workspace isolation.
+  
+      Session-scoped fixture that starts sloppy.py with --enable-test-hooks.
+      Includes high-signal environment telemetry and workspace isolation.
  """
  gui_script = os.path.abspath("sloppy.py")
  diag = VerificationLogger("live_gui_startup", "live_gui_diag")
diff --git a/tests/smoke_status_hook.py b/tests/smoke_status_hook.py
index 2648566..cd674ee 100644
--- a/tests/smoke_status_hook.py
+++ b/tests/smoke_status_hook.py
@@ -10,7 +10,8 @@ from src.api_hook_client import ApiHookClient
 
 def wait_for_value(client, field, expected, timeout=5):
  """
- Polls the GUI state until a field matches the expected value.
+ 
+  Polls the GUI state until a field matches the expected value.
   [C: tests/test_live_workflow.py:test_full_live_workflow]
  """
  start = time.time()
diff --git a/tests/test_ai_client_list_models.py b/tests/test_ai_client_list_models.py
index f046857..6bb51ab 100644
--- a/tests/test_ai_client_list_models.py
+++ b/tests/test_ai_client_list_models.py
@@ -3,8 +3,9 @@ from src import ai_client
 def test_list_models_gemini_cli() -> None:
  """
  
-     Verifies that 'ai_client.list_models' correctly returns a list of models
-     for the 'gemini_cli' provider.
+  
+      Verifies that 'ai_client.list_models' correctly returns a list of models
+      for the 'gemini_cli' provider.
  """
  models = ai_client.list_models("gemini_cli")
  assert "gemini-3.1-pro-preview" in models
diff --git a/tests/test_app_controller_offloading.py b/tests/test_app_controller_offloading.py
index 3c679d0..cd72ab9 100644
--- a/tests/test_app_controller_offloading.py
+++ b/tests/test_app_controller_offloading.py
@@ -37,7 +37,8 @@ def app_controller(tmp_session_dir):
 def test_on_comms_entry_tool_result_offloading(app_controller, tmp_session_dir):
  """
  
-  Test that _on_comms_entry offloads tool_result output to a separate file.
+  
+   Test that _on_comms_entry offloads tool_result output to a separate file.
  """
  output_content = "This is a large tool output that should be offloaded."
  entry = {
@@ -83,7 +84,8 @@ def test_on_comms_entry_tool_result_offloading(app_controller, tmp_session_dir):
 def test_on_tool_log_offloading(app_controller, tmp_session_dir):
  """
  
-  Test that _on_tool_log calls session_logger.log_tool_call and log_tool_output.
+  
+   Test that _on_tool_log calls session_logger.log_tool_call and log_tool_output.
  """
  script = "Get-Process"
  result = "Process list..."
diff --git a/tests/test_ast_parser.py b/tests/test_ast_parser.py
index 92f4290..89503b3 100644
--- a/tests/test_ast_parser.py
+++ b/tests/test_ast_parser.py
@@ -323,4 +323,4 @@ public:
  assert 'void myMethod() {' in updated
  assert 'int y = 2;' in updated
  assert 'int x = 1;' not in updated
- assert 'class MyClass {' in updated
+ assert 'class MyClass {' in updated
\ No newline at end of file
diff --git a/tests/test_async_tools.py b/tests/test_async_tools.py
index b770d7d..38fc1bb 100644
--- a/tests/test_async_tools.py
+++ b/tests/test_async_tools.py
@@ -9,8 +9,9 @@ from src import mcp_client
 async def test_execute_tool_calls_concurrently_timing():
  """
  
-  Verifies that _execute_tool_calls_concurrently runs tools in parallel.
-  Total time should be approx 0.5s for 3 tools each taking 0.5s.
+  
+   Verifies that _execute_tool_calls_concurrently runs tools in parallel.
+   Total time should be approx 0.5s for 3 tools each taking 0.5s.
  """
  # 1. Setup mock tool calls (Gemini style)
  class MockGeminiCall:
@@ -67,8 +68,9 @@ async def test_execute_tool_calls_concurrently_timing():
 async def test_execute_tool_calls_concurrently_exception_handling():
  """
  
-  Verifies that if one tool call fails, it doesn't crash the whole group if caught,
-  but currently gather is used WITHOUT return_exceptions=True, so it should re-raise.
+  
+   Verifies that if one tool call fails, it doesn't crash the whole group if caught,
+   but currently gather is used WITHOUT return_exceptions=True, so it should re-raise.
  """
  class MockGeminiCall:
   def __init__(self, name, args):
diff --git a/tests/test_cli_tool_bridge_mapping.py b/tests/test_cli_tool_bridge_mapping.py
index 20143ad..b4c5789 100644
--- a/tests/test_cli_tool_bridge_mapping.py
+++ b/tests/test_cli_tool_bridge_mapping.py
@@ -22,8 +22,9 @@ class TestCliToolBridgeMapping(unittest.TestCase):
  def test_mapping_from_api_format(self, mock_request: MagicMock, mock_stdout: MagicMock, mock_stdin: MagicMock) -> None:
   """
   
-          Verify that bridge correctly maps 'id', 'name', 'input' (Gemini API format)
-          into tool_name and tool_input for the hook client.
+    
+            Verify that bridge correctly maps 'id', 'name', 'input' (Gemini API format)
+            into tool_name and tool_input for the hook client.
   """
   api_tool_call = {
    'id': 'call123',
diff --git a/tests/test_conductor_abort_event.py b/tests/test_conductor_abort_event.py
index 0d4b8d5..2528b91 100644
--- a/tests/test_conductor_abort_event.py
+++ b/tests/test_conductor_abort_event.py
@@ -7,7 +7,8 @@ import threading
 def test_conductor_abort_event_populated():
  """
  
-  Test that ConductorEngine populates _abort_events when spawning a worker.
+  
+   Test that ConductorEngine populates _abort_events when spawning a worker.
  """
  # 1. Mock WorkerPool.spawn to return a mock thread
  with patch('src.multi_agent_conductor.WorkerPool.spawn') as mock_spawn:
diff --git a/tests/test_conductor_api_hook_integration.py b/tests/test_conductor_api_hook_integration.py
index e7c2da2..c5cc1e4 100644
--- a/tests/test_conductor_api_hook_integration.py
+++ b/tests/test_conductor_api_hook_integration.py
@@ -4,7 +4,8 @@ from src.api_hook_client import ApiHookClient
 def simulate_conductor_phase_completion(client: ApiHookClient, track_id: str, phase_name: str) -> bool:
  """
  
-     Simulates the Conductor agent's logic for phase completion using ApiHookClient.
+  
+      Simulates the Conductor agent's logic for phase completion using ApiHookClient.
  """
  try:
   # 1. Poll for state
@@ -24,8 +25,9 @@ def simulate_conductor_phase_completion(client: ApiHookClient, track_id: str, ph
 
 def test_conductor_integrates_api_hook_client_for_verification(live_gui) -> None:
  """
- Verify that Conductor's simulated phase completion logic properly integrates
-     with the ApiHookClient and the live Hook Server.
+ 
+  Verify that Conductor's simulated phase completion logic properly integrates
+      with the ApiHookClient and the live Hook Server.
  """
  client = ApiHookClient()
  assert client.wait_for_server(timeout=10)
diff --git a/tests/test_conductor_engine_abort.py b/tests/test_conductor_engine_abort.py
index 2d3eef6..bfa1ec6 100644
--- a/tests/test_conductor_engine_abort.py
+++ b/tests/test_conductor_engine_abort.py
@@ -8,7 +8,8 @@ from src.models import Track
 def test_conductor_engine_initializes_empty_worker_and_abort_dicts() -> None:
  """
  
-  Test that ConductorEngine correctly initializes _active_workers and _abort_events as empty dictionaries.
+  
+   Test that ConductorEngine correctly initializes _active_workers and _abort_events as empty dictionaries.
  """
  # Mock the track object
  mock_track = MagicMock(spec=Track)
@@ -24,8 +25,9 @@ def test_conductor_engine_initializes_empty_worker_and_abort_dicts() -> None:
 def test_kill_worker_sets_abort_and_joins_thread() -> None:
  """
  
-  Test kill_worker: mock a running thread in _active_workers, call kill_worker,
-  assert abort_event is set and thread is joined.
+  
+   Test kill_worker: mock a running thread in _active_workers, call kill_worker,
+   assert abort_event is set and thread is joined.
  """
  mock_track = MagicMock(spec=Track)
  mock_track.tickets = []
@@ -38,7 +40,7 @@ def test_kill_worker_sets_abort_and_joins_thread() -> None:
  # Create a thread that waits for the abort event
  def worker():
   """
-  [C: tests/test_symbol_parsing.py:test_handle_generate_send_appends_definitions, tests/test_symbol_parsing.py:test_handle_generate_send_no_symbols]
+    [C: tests/test_symbol_parsing.py:test_handle_generate_send_appends_definitions, tests/test_symbol_parsing.py:test_handle_generate_send_no_symbols]
   """
   abort_event.wait(timeout=2.0)
  
diff --git a/tests/test_conductor_engine_v2.py b/tests/test_conductor_engine_v2.py
index 0ec31fa..11bb801 100644
--- a/tests/test_conductor_engine_v2.py
+++ b/tests/test_conductor_engine_v2.py
@@ -10,7 +10,8 @@ from src import ai_client
 def test_conductor_engine_initialization() -> None:
  """
  
-     Test that ConductorEngine can be initialized with a Track.
+  
+      Test that ConductorEngine can be initialized with a Track.
  """
  track = Track(id="test_track", description="Test Track")
  from src.multi_agent_conductor import ConductorEngine
@@ -20,7 +21,8 @@ def test_conductor_engine_initialization() -> None:
 def test_conductor_engine_run_executes_tickets_in_order(monkeypatch: pytest.MonkeyPatch, vlogger) -> None:
  """
  
-     Test that run iterates through executable tickets and calls the worker lifecycle.
+  
+      Test that run iterates through executable tickets and calls the worker lifecycle.
  """
  ticket1 = Ticket(id="T1", description="Task 1", status="todo", assigned_to="worker1")
  ticket2 = Ticket(id="T2", description="Task 2", status="todo", assigned_to="worker2", depends_on=["T1"])
@@ -67,7 +69,8 @@ def test_conductor_engine_run_executes_tickets_in_order(monkeypatch: pytest.Monk
 def test_run_worker_lifecycle_calls_ai_client_send(monkeypatch: pytest.MonkeyPatch) -> None:
  """
  
-     Test that run_worker_lifecycle triggers the AI client and updates ticket status on success.
+  
+      Test that run_worker_lifecycle triggers the AI client and updates ticket status on success.
  """
  ticket = Ticket(id="T1", description="Task 1", status="todo", assigned_to="worker1")
  context = WorkerContext(ticket_id="T1", model_name="test-model", messages=[])
@@ -88,7 +91,8 @@ def test_run_worker_lifecycle_calls_ai_client_send(monkeypatch: pytest.MonkeyPat
 def test_run_worker_lifecycle_context_injection(monkeypatch: pytest.MonkeyPatch) -> None:
  """
  
-     Test that run_worker_lifecycle can take a context_files list and injects AST views into the prompt.
+  
+      Test that run_worker_lifecycle can take a context_files list and injects AST views into the prompt.
  """
  ticket = Ticket(id="T1", description="Task 1", status="todo", assigned_to="worker1")
  context = WorkerContext(ticket_id="T1", model_name="test-model", messages=[])
@@ -134,7 +138,8 @@ def test_run_worker_lifecycle_context_injection(monkeypatch: pytest.MonkeyPatch)
 def test_run_worker_lifecycle_handles_blocked_response(monkeypatch: pytest.MonkeyPatch) -> None:
  """
  
-     Test that run_worker_lifecycle marks the ticket as blocked if the AI indicates it cannot proceed.
+  
+      Test that run_worker_lifecycle marks the ticket as blocked if the AI indicates it cannot proceed.
  """
  ticket = Ticket(id="T1", description="Task 1", status="todo", assigned_to="worker1")
  context = WorkerContext(ticket_id="T1", model_name="test-model", messages=[])
@@ -151,9 +156,10 @@ def test_run_worker_lifecycle_handles_blocked_response(monkeypatch: pytest.Monke
 def test_run_worker_lifecycle_step_mode_confirmation(monkeypatch: pytest.MonkeyPatch) -> None:
  """
  
-     Test that run_worker_lifecycle passes confirm_execution to ai_client.send when step_mode is True.
-     Verify that if confirm_execution is called (simulated by mocking ai_client.send to call its callback),
-     the flow works as expected.
+  
+      Test that run_worker_lifecycle passes confirm_execution to ai_client.send when step_mode is True.
+      Verify that if confirm_execution is called (simulated by mocking ai_client.send to call its callback),
+      the flow works as expected.
  """
  ticket = Ticket(id="T1", description="Task 1", status="todo", assigned_to="worker1", step_mode=True)
  context = WorkerContext(ticket_id="T1", model_name="test-model", messages=[])
@@ -188,8 +194,9 @@ def test_run_worker_lifecycle_step_mode_confirmation(monkeypatch: pytest.MonkeyP
 def test_run_worker_lifecycle_step_mode_rejection(monkeypatch: pytest.MonkeyPatch) -> None:
  """
  
-     Verify that if confirm_execution returns False, the logic (in ai_client, which we simulate here)
-     would prevent execution. In run_worker_lifecycle, we just check if it's passed.
+  
+      Verify that if confirm_execution returns False, the logic (in ai_client, which we simulate here)
+      would prevent execution. In run_worker_lifecycle, we just check if it's passed.
  """
  ticket = Ticket(id="T1", description="Task 1", status="todo", assigned_to="worker1", step_mode=True)
  context = WorkerContext(ticket_id="T1", model_name="test-model", messages=[])
@@ -213,7 +220,8 @@ def test_run_worker_lifecycle_step_mode_rejection(monkeypatch: pytest.MonkeyPatc
 def test_conductor_engine_dynamic_parsing_and_execution(monkeypatch: pytest.MonkeyPatch, vlogger) -> None:
  """
  
-     Test that parse_json_tickets correctly populates the track and run executes them in dependency order.
+  
+      Test that parse_json_tickets correctly populates the track and run executes them in dependency order.
  """
  import json
  from src.multi_agent_conductor import ConductorEngine
@@ -281,8 +289,9 @@ def test_conductor_engine_dynamic_parsing_and_execution(monkeypatch: pytest.Monk
 def test_run_worker_lifecycle_pushes_response_via_queue(monkeypatch: pytest.MonkeyPatch) -> None:
  """
  
-     Test that run_worker_lifecycle pushes a 'response' event with the correct stream_id
-     via _queue_put when event_queue is provided.
+  
+      Test that run_worker_lifecycle pushes a 'response' event with the correct stream_id
+      via _queue_put when event_queue is provided.
  """
  ticket = Ticket(id="T1", description="Task 1", status="todo", assigned_to="worker1")
  context = WorkerContext(ticket_id="T1", model_name="test-model", messages=[])
@@ -307,8 +316,9 @@ def test_run_worker_lifecycle_pushes_response_via_queue(monkeypatch: pytest.Monk
 def test_run_worker_lifecycle_token_usage_from_comms_log(monkeypatch: pytest.MonkeyPatch) -> None:
  """
  
-     Test that run_worker_lifecycle reads token usage from the comms log and
-     updates engine.tier_usage['Tier 3'] with real input/output token counts.
+  
+      Test that run_worker_lifecycle reads token usage from the comms log and
+      updates engine.tier_usage['Tier 3'] with real input/output token counts.
  """
  ticket = Ticket(id="T1", description="Task 1", status="todo", assigned_to="worker1")
  context = WorkerContext(ticket_id="T1", model_name="test-model", messages=[])
diff --git a/tests/test_dag_engine.py b/tests/test_dag_engine.py
index ad9f402..5cc88d2 100644
--- a/tests/test_dag_engine.py
+++ b/tests/test_dag_engine.py
@@ -10,7 +10,8 @@ from src.dag_engine import TrackDAG
 def test_get_ready_tasks_linear():
  """
  
-  Verifies ready tasks detection in a simple linear dependency chain.
+  
+   Verifies ready tasks detection in a simple linear dependency chain.
  """
  t1 = Ticket(id="T1", description="desc", status="todo", assigned_to="worker1")
  t2 = Ticket(id="T2", description="desc", status="todo", assigned_to="worker1", depends_on=["T1"])
@@ -22,8 +23,9 @@ def test_get_ready_tasks_linear():
 def test_get_ready_tasks_branching():
  """
  
-  Verifies ready tasks detection in a branching dependency graph where multiple tasks
-  are unlocked simultaneously after a prerequisite is met.
+  
+   Verifies ready tasks detection in a branching dependency graph where multiple tasks
+   are unlocked simultaneously after a prerequisite is met.
  """
  t1 = Ticket(id="T1", description="desc", status="completed", assigned_to="worker1")
  t2 = Ticket(id="T2", description="desc", status="todo", assigned_to="worker1", depends_on=["T1"])
@@ -38,7 +40,8 @@ def test_get_ready_tasks_branching():
 def test_has_cycle_no_cycle():
  """
  
-  Validates that an acyclic graph is correctly identified as not having cycles.
+  
+   Validates that an acyclic graph is correctly identified as not having cycles.
  """
  t1 = Ticket(id="T1", description="desc", status="todo", assigned_to="worker1")
  t2 = Ticket(id="T2", description="desc", status="todo", assigned_to="worker1", depends_on=["T1"])
@@ -48,7 +51,8 @@ def test_has_cycle_no_cycle():
 def test_has_cycle_direct_cycle():
  """
  
-  Validates that a direct cycle (A depends on B, B depends on A) is correctly detected.
+  
+   Validates that a direct cycle (A depends on B, B depends on A) is correctly detected.
  """
  t1 = Ticket(id="T1", description="desc", status="todo", assigned_to="worker1", depends_on=["T2"])
  t2 = Ticket(id="T2", description="desc", status="todo", assigned_to="worker1", depends_on=["T1"])
@@ -58,7 +62,8 @@ def test_has_cycle_direct_cycle():
 def test_has_cycle_indirect_cycle():
  """
  
-  Validates that an indirect cycle (A->B->C->A) is correctly detected.
+  
+   Validates that an indirect cycle (A->B->C->A) is correctly detected.
  """
  t1 = Ticket(id="T1", description="desc", status="todo", assigned_to="worker1", depends_on=["T3"])
  t2 = Ticket(id="T2", description="desc", status="todo", assigned_to="worker1", depends_on=["T1"])
@@ -69,7 +74,8 @@ def test_has_cycle_indirect_cycle():
 def test_has_cycle_complex_no_cycle():
  """
  
-  Validates cycle detection in a complex graph that merges branches but remains acyclic.
+  
+   Validates cycle detection in a complex graph that merges branches but remains acyclic.
  """
  t1 = Ticket(id="T1", description="desc", status="todo", assigned_to="worker1")
  t2 = Ticket(id="T2", description="desc", status="todo", assigned_to="worker1", depends_on=["T1"])
@@ -81,7 +87,8 @@ def test_has_cycle_complex_no_cycle():
 def test_get_ready_tasks_multiple_deps():
  """
  
-  Validates that a task is not marked ready until ALL of its dependencies are completed.
+  
+   Validates that a task is not marked ready until ALL of its dependencies are completed.
  """
  t1 = Ticket(id="T1", description="desc", status="completed", assigned_to="worker1")
  t2 = Ticket(id="T2", description="desc", status="todo", assigned_to="worker1")
@@ -95,7 +102,8 @@ def test_get_ready_tasks_multiple_deps():
 def test_topological_sort():
  """
  
-  Verifies that tasks are correctly ordered by dependencies regardless of input order.
+  
+   Verifies that tasks are correctly ordered by dependencies regardless of input order.
  """
  t1 = Ticket(id="T1", description="desc", status="todo", assigned_to="worker1")
  t2 = Ticket(id="T2", description="desc", status="todo", assigned_to="worker1", depends_on=["T1"])
@@ -107,7 +115,8 @@ def test_topological_sort():
 def test_topological_sort_cycle():
  """
  
-  Verifies that topological sorting safely aborts and raises ValueError when a cycle is present.
+  
+   Verifies that topological sorting safely aborts and raises ValueError when a cycle is present.
  """
  t1 = Ticket(id="T1", description="desc", status="todo", assigned_to="worker1", depends_on=["T2"])
  t2 = Ticket(id="T2", description="desc", status="todo", assigned_to="worker1", depends_on=["T1"])
diff --git a/tests/test_deepseek_infra.py b/tests/test_deepseek_infra.py
index 39334da..4f0e335 100644
--- a/tests/test_deepseek_infra.py
+++ b/tests/test_deepseek_infra.py
@@ -13,8 +13,9 @@ from src import project_manager
 def test_credentials_error_mentions_deepseek(monkeypatch: pytest.MonkeyPatch) -> None:
  """
  
-     Verify that the error message shown when credentials.toml is missing
-     includes deepseek instructions.
+  
+      Verify that the error message shown when credentials.toml is missing
+      includes deepseek instructions.
  """
  # Monkeypatch SLOP_CREDENTIALS to a non-existent file
  monkeypatch.setenv("SLOP_CREDENTIALS", "non_existent_credentials_file.toml")
@@ -27,8 +28,9 @@ def test_credentials_error_mentions_deepseek(monkeypatch: pytest.MonkeyPatch) ->
 def test_default_project_includes_reasoning_role() -> None:
  """
  
-     Verify that 'Reasoning' is included in the default discussion roles
-     to support DeepSeek-R1 reasoning traces.
+  
+      Verify that 'Reasoning' is included in the default discussion roles
+      to support DeepSeek-R1 reasoning traces.
  """
  proj = project_manager.default_project("test")
  roles = proj["discussion"]["roles"]
@@ -37,7 +39,8 @@ def test_default_project_includes_reasoning_role() -> None:
 def test_gui_providers_list() -> None:
  """
  
-     Check if 'deepseek' is in the GUI's provider list.
+  
+      Check if 'deepseek' is in the GUI's provider list.
  """
  from src.models import PROVIDERS
  assert "deepseek" in PROVIDERS
@@ -45,7 +48,8 @@ def test_gui_providers_list() -> None:
 def test_deepseek_model_listing() -> None:
  """
  
-     Verify that list_models for deepseek returns expected models.
+  
+      Verify that list_models for deepseek returns expected models.
  """
  models = ai_client.list_models("deepseek")
  assert "deepseek-chat" in models
@@ -54,7 +58,8 @@ def test_deepseek_model_listing() -> None:
 def test_gui_provider_list_via_hooks(live_gui: Any) -> None:
  """
  
-     Verify 'deepseek' is present in the GUI provider list using API hooks.
+  
+      Verify 'deepseek' is present in the GUI provider list using API hooks.
  """
  from api_hook_client import ApiHookClient
  import time
diff --git a/tests/test_deepseek_provider.py b/tests/test_deepseek_provider.py
index b9bba68..416d72d 100644
--- a/tests/test_deepseek_provider.py
+++ b/tests/test_deepseek_provider.py
@@ -5,7 +5,8 @@ from src import ai_client
 def test_deepseek_model_selection() -> None:
  """
  
-     Verifies that ai_client.set_provider('deepseek', 'deepseek-chat') correctly updates the internal state.
+  
+      Verifies that ai_client.set_provider('deepseek', 'deepseek-chat') correctly updates the internal state.
  """
  ai_client.set_provider("deepseek", "deepseek-chat")
  assert ai_client._provider == "deepseek"
@@ -15,7 +16,8 @@ def test_deepseek_model_selection() -> None:
 def test_deepseek_completion_logic(mock_post: MagicMock) -> None:
  """
  
-     Verifies that ai_client.send() correctly calls the DeepSeek API and returns content.
+  
+      Verifies that ai_client.send() correctly calls the DeepSeek API and returns content.
  """
  ai_client.set_provider("deepseek", "deepseek-chat")
  with patch("src.ai_client._load_credentials", return_value={"deepseek": {"api_key": "test-key"}}):
@@ -34,7 +36,8 @@ def test_deepseek_completion_logic(mock_post: MagicMock) -> None:
 def test_deepseek_reasoning_logic(mock_post: MagicMock) -> None:
  """
  
-     Verifies that reasoning_content is captured and wrapped in <thinking> tags.
+  
+      Verifies that reasoning_content is captured and wrapped in <thinking> tags.
  """
  ai_client.set_provider("deepseek", "deepseek-reasoner")
  with patch("src.ai_client._load_credentials", return_value={"deepseek": {"api_key": "test-key"}}):
@@ -56,7 +59,8 @@ def test_deepseek_reasoning_logic(mock_post: MagicMock) -> None:
 def test_deepseek_tool_calling(mock_post: MagicMock) -> None:
  """
  
-     Verifies that DeepSeek provider correctly identifies and executes tool calls.
+  
+      Verifies that DeepSeek provider correctly identifies and executes tool calls.
  """
  ai_client.set_provider("deepseek", "deepseek-chat")
  with patch("src.ai_client._load_credentials", return_value={"deepseek": {"api_key": "test-key"}}), \
@@ -98,7 +102,8 @@ def test_deepseek_tool_calling(mock_post: MagicMock) -> None:
 def test_deepseek_streaming(mock_post: MagicMock) -> None:
  """
  
-     Verifies that DeepSeek provider correctly aggregates streaming chunks.
+  
+      Verifies that DeepSeek provider correctly aggregates streaming chunks.
  """
  ai_client.set_provider("deepseek", "deepseek-chat")
  with patch("src.ai_client._load_credentials", return_value={"deepseek": {"api_key": "test-key"}}):
@@ -121,7 +126,8 @@ def test_deepseek_streaming(mock_post: MagicMock) -> None:
 def test_deepseek_payload_verification(mock_post: MagicMock) -> None:
  """
  
-     Verifies that the correct JSON payload (tools, history, params) is sent to DeepSeek.
+  
+      Verifies that the correct JSON payload (tools, history, params) is sent to DeepSeek.
  """
  ai_client.set_provider("deepseek", "deepseek-chat")
  ai_client.reset_session()
@@ -149,7 +155,8 @@ def test_deepseek_payload_verification(mock_post: MagicMock) -> None:
 def test_deepseek_reasoner_payload_verification(mock_post: MagicMock) -> None:
  """
  
-     Verifies that deepseek-reasoner payload excludes tools and temperature.
+  
+      Verifies that deepseek-reasoner payload excludes tools and temperature.
  """
  ai_client.set_provider("deepseek", "deepseek-reasoner")
  ai_client.reset_session()
diff --git a/tests/test_extended_sims.py b/tests/test_extended_sims.py
index 7046c99..86df267 100644
--- a/tests/test_extended_sims.py
+++ b/tests/test_extended_sims.py
@@ -69,4 +69,4 @@ def test_execution_sim_live(live_gui: Any) -> None:
  client.set_value('auto_add_history', True)
  sim.run()
  time.sleep(2)
- sim.teardown()
+ sim.teardown()
\ No newline at end of file
diff --git a/tests/test_file_item_model.py b/tests/test_file_item_model.py
index 0e503ee..7008d56 100644
--- a/tests/test_file_item_model.py
+++ b/tests/test_file_item_model.py
@@ -55,4 +55,4 @@ def test_file_item_from_dict_defaults():
  assert item.view_mode == "full"
  assert item.ast_mask == {}
  assert item.custom_slices == []
- assert item.injected_at is None
+ assert item.injected_at is None
\ No newline at end of file
diff --git a/tests/test_gemini_metrics.py b/tests/test_gemini_metrics.py
index 46e2fb5..301f345 100644
--- a/tests/test_gemini_metrics.py
+++ b/tests/test_gemini_metrics.py
@@ -12,8 +12,9 @@ from src.ai_client import get_gemini_cache_stats, reset_session
 def test_get_gemini_cache_stats_with_mock_client() -> None:
  """
  
-     Test that get_gemini_cache_stats correctly processes cache lists
-     from a mocked client instance.
+  
+      Test that get_gemini_cache_stats correctly processes cache lists
+      from a mocked client instance.
  """
  # Ensure a clean state before the test by resetting the session
  reset_session()
diff --git a/tests/test_gui2_events.py b/tests/test_gui2_events.py
index 151bb36..f01e24f 100644
--- a/tests/test_gui2_events.py
+++ b/tests/test_gui2_events.py
@@ -12,8 +12,9 @@ def app_instance(monkeypatch: pytest.MonkeyPatch) -> type[App]:
 def test_app_subscribes_to_events(app_instance: type[App]) -> None:
  """
  
-     This test checks that the App's __init__ method subscribes the necessary
-     event handlers to the ai_client.events emitter.
+  
+      This test checks that the App's __init__ method subscribes the necessary
+      event handlers to the ai_client.events emitter.
  """
  with patch.object(ai_client.events, 'on') as mock_on:
   app = app_instance()
diff --git a/tests/test_gui2_layout.py b/tests/test_gui2_layout.py
index 9755045..b0a1c69 100644
--- a/tests/test_gui2_layout.py
+++ b/tests/test_gui2_layout.py
@@ -3,8 +3,9 @@ from src.gui_2 import App
 def test_gui2_hubs_exist_in_show_windows(app_instance: App) -> None:
  """
  
-     Verifies that the new consolidated Hub windows are defined in the App's show_windows.
-     This ensures they will be available in the 'Windows' menu.
+  
+      Verifies that the new consolidated Hub windows are defined in the App's show_windows.
+      This ensures they will be available in the 'Windows' menu.
  """
  expected_hubs = [
   "Project Settings",
@@ -20,8 +21,9 @@ def test_gui2_hubs_exist_in_show_windows(app_instance: App) -> None:
 def test_gui2_old_windows_removed_from_show_windows(app_instance: App) -> None:
  """
  
-     Verifies that the old fragmented windows are removed from show_windows.
-     Note: Message, Response, and Tool Calls are kept as they are now optional standalone windows.
+  
+      Verifies that the old fragmented windows are removed from show_windows.
+      Note: Message, Response, and Tool Calls are kept as they are now optional standalone windows.
  """
  old_windows = [
   "Projects", "Files", "Screenshots",
diff --git a/tests/test_gui2_mcp.py b/tests/test_gui2_mcp.py
index 7cffefa..97e9945 100644
--- a/tests/test_gui2_mcp.py
+++ b/tests/test_gui2_mcp.py
@@ -6,9 +6,10 @@ from src import ai_client
 def test_mcp_tool_call_is_dispatched(app_instance: App) -> None:
  """
  
-     This test verifies that when the AI returns a tool call for an MCP function,
-     the ai_client correctly dispatches it to mcp_client.
-     This will fail until mcp_client is properly integrated.
+  
+      This test verifies that when the AI returns a tool call for an MCP function,
+      the ai_client correctly dispatches it to mcp_client.
+      This will fail until mcp_client is properly integrated.
  """
  # 1. Define the mock tool call from the AI
  mock_fc = MagicMock()
diff --git a/tests/test_gui2_parity.py b/tests/test_gui2_parity.py
index 01ffbc5..34dc420 100644
--- a/tests/test_gui2_parity.py
+++ b/tests/test_gui2_parity.py
@@ -26,7 +26,8 @@ def cleanup_callback_file() -> None:
 def test_gui2_set_value_hook_works(live_gui: Any) -> None:
  """
  
-     Tests that the 'set_value' GUI hook is correctly implemented.
+  
+      Tests that the 'set_value' GUI hook is correctly implemented.
  """
  client = ApiHookClient()
  assert client.wait_for_server(timeout=10)
@@ -42,7 +43,8 @@ def test_gui2_set_value_hook_works(live_gui: Any) -> None:
 def test_gui2_click_hook_works(live_gui: Any) -> None:
  """
  
-     Tests that the 'click' GUI hook for the 'Reset' button is implemented.
+  
+      Tests that the 'click' GUI hook for the 'Reset' button is implemented.
  """
  client = ApiHookClient()
  assert client.wait_for_server(timeout=10)
@@ -60,7 +62,8 @@ def test_gui2_click_hook_works(live_gui: Any) -> None:
 def test_gui2_custom_callback_hook_works(live_gui: Any) -> None:
  """
  
-     Tests that the 'custom_callback' GUI hook is correctly implemented.
+  
+      Tests that the 'custom_callback' GUI hook is correctly implemented.
  """
  client = ApiHookClient()
  assert client.wait_for_server(timeout=10)
@@ -78,4 +81,4 @@ def test_gui2_custom_callback_hook_works(live_gui: Any) -> None:
  assert temp_workspace_file.exists(), f"Custom callback was NOT executed, or file path is wrong! Expected: {temp_workspace_file}"
  with open(temp_workspace_file, "r") as f:
   content = f.read()
-  assert content == test_data, "Callback executed, but file content is incorrect."
+  assert content == test_data, "Callback executed, but file content is incorrect."
\ No newline at end of file
diff --git a/tests/test_gui2_performance.py b/tests/test_gui2_performance.py
index 279a048..713f7ef 100644
--- a/tests/test_gui2_performance.py
+++ b/tests/test_gui2_performance.py
@@ -20,8 +20,9 @@ _shared_metrics = {}
 def test_performance_benchmarking(live_gui: tuple) -> None:
  """
  
-  Collects performance metrics for the current GUI script over a 5-second window.
-  Ensures the application does not lock up and can report its internal state.
+  
+   Collects performance metrics for the current GUI script over a 5-second window.
+   Ensures the application does not lock up and can report its internal state.
  """
  process, gui_script = live_gui
  client = ApiHookClient()
@@ -67,8 +68,9 @@ def test_performance_benchmarking(live_gui: tuple) -> None:
 def test_performance_baseline_check() -> None:
  """
  
-  Verifies that we have successfully collected performance metrics for sloppy.py
-  and that they meet the minimum 30 FPS baseline.
+  
+   Verifies that we have successfully collected performance metrics for sloppy.py
+   and that they meet the minimum 30 FPS baseline.
  """
  # Key is full path, find it by basename
  gui_key = next((k for k in _shared_metrics if "sloppy.py" in k), None)
diff --git a/tests/test_gui_diagnostics.py b/tests/test_gui_diagnostics.py
index 5c921a7..4d150d8 100644
--- a/tests/test_gui_diagnostics.py
+++ b/tests/test_gui_diagnostics.py
@@ -15,9 +15,10 @@ def test_diagnostics_panel_initialization(app_instance: Any) -> None:
 def test_diagnostics_history_updates(app_instance: Any) -> None:
  """
  
-  Verifies that the internal performance history is updated correctly.
-  This logic is inside the render loop in gui_2.py, but we can test
-  the data structure and initialization.
+  
+   Verifies that the internal performance history is updated correctly.
+   This logic is inside the render loop in gui_2.py, but we can test
+   the data structure and initialization.
  """
  assert "fps" in app_instance.perf_history
  assert len(app_instance.perf_history["fps"]) == 100
\ No newline at end of file
diff --git a/tests/test_gui_fast_render.py b/tests/test_gui_fast_render.py
index 2c79ed0..74bf001 100644
--- a/tests/test_gui_fast_render.py
+++ b/tests/test_gui_fast_render.py
@@ -60,4 +60,4 @@ def test_render_files_and_media_fast(app_instance: App):
   try:
    app_instance._render_files_and_media()
   except Exception as e:
-   pytest.fail(f"_render_files_and_media raised an exception: {e}")
+   pytest.fail(f"_render_files_and_media raised an exception: {e}")
\ No newline at end of file
diff --git a/tests/test_gui_paths.py b/tests/test_gui_paths.py
index a238781..d0b5dd3 100644
--- a/tests/test_gui_paths.py
+++ b/tests/test_gui_paths.py
@@ -13,7 +13,7 @@ class MockApp:
  
  def init_state(self):
   """
-  [C: tests/test_system_prompt_exposure.py:TestSystemPromptExposure.test_app_controller_init_state_loads_prompts]
+    [C: tests/test_system_prompt_exposure.py:TestSystemPromptExposure.test_app_controller_init_state_loads_prompts]
   """
   pass
   
diff --git a/tests/test_gui_performance_requirements.py b/tests/test_gui_performance_requirements.py
index 9b69b34..af98709 100644
--- a/tests/test_gui_performance_requirements.py
+++ b/tests/test_gui_performance_requirements.py
@@ -11,7 +11,8 @@ from api_hook_client import ApiHookClient
 def test_idle_performance_requirements(live_gui) -> None:
  """
  
-     Requirement: GUI must maintain stable performance on idle.
+  
+      Requirement: GUI must maintain stable performance on idle.
  """
  # Warmup to ensure GUI is ready
  time.sleep(5.0)
diff --git a/tests/test_gui_phase3.py b/tests/test_gui_phase3.py
index df84150..3b3b1d8 100644
--- a/tests/test_gui_phase3.py
+++ b/tests/test_gui_phase3.py
@@ -12,8 +12,9 @@ from src import paths
 def test_track_proposal_editing(app_instance):
  """
  
-  Verifies the structural integrity of track proposal items.
-  Ensures that track proposals can be edited and removed from the active list.
+  
+   Verifies the structural integrity of track proposal items.
+   Ensures that track proposals can be edited and removed from the active list.
  """
  app_instance.proposed_tracks = [
   {"title": "Old Title", "goal": "Old Goal"},
@@ -35,8 +36,9 @@ def test_track_proposal_editing(app_instance):
 def test_conductor_setup_scan(app_instance, tmp_path, monkeypatch):
  """
  
-  Verifies that the conductor setup scan properly iterates through the conductor directory,
-  counts files and lines, and identifies active tracks.
+  
+   Verifies that the conductor setup scan properly iterates through the conductor directory,
+   counts files and lines, and identifies active tracks.
  """
  old_cwd = os.getcwd()
  os.chdir(tmp_path)
@@ -63,8 +65,9 @@ def test_conductor_setup_scan(app_instance, tmp_path, monkeypatch):
 def test_create_track(app_instance, tmp_path):
  """
  
-  Verifies that _cb_create_track properly creates the track folder
-  and populates the necessary boilerplate files (spec.md, plan.md, metadata.json).
+  
+   Verifies that _cb_create_track properly creates the track folder
+   and populates the necessary boilerplate files (spec.md, plan.md, metadata.json).
  """
  old_cwd = os.getcwd()
  os.chdir(tmp_path)
@@ -91,4 +94,4 @@ def test_create_track(app_instance, tmp_path):
    assert data['type'] == "feature"
    assert data['id'] == track_dir.name
  finally:
-  os.chdir(old_cwd)
+  os.chdir(old_cwd)
\ No newline at end of file
diff --git a/tests/test_gui_startup_smoke.py b/tests/test_gui_startup_smoke.py
index 83e3a8f..ebbb3fa 100644
--- a/tests/test_gui_startup_smoke.py
+++ b/tests/test_gui_startup_smoke.py
@@ -3,7 +3,8 @@ import time
 def test_gui_startup_smoke(live_gui):
  """
  
-  Smoke test to ensure the GUI starts and remains running.
+  
+   Smoke test to ensure the GUI starts and remains running.
  """
  proc, _ = live_gui
  
diff --git a/tests/test_gui_text_viewer.py b/tests/test_gui_text_viewer.py
index 396dc1f..91a6f8b 100644
--- a/tests/test_gui_text_viewer.py
+++ b/tests/test_gui_text_viewer.py
@@ -5,7 +5,8 @@ from src.api_hook_client import ApiHookClient
 def test_text_viewer_state_update(live_gui) -> None:
  """
  
-  Verifies that we can set text viewer state and it is reflected in GUI state.
+  
+   Verifies that we can set text viewer state and it is reflected in GUI state.
  """
  client = ApiHookClient()
  client.click("btn_reset")
@@ -32,4 +33,4 @@ def test_text_viewer_state_update(live_gui) -> None:
  assert state is not None
  assert state.get('show_text_viewer') == True
  assert state.get('text_viewer_title') == label
- assert state.get('text_viewer_type') == text_type
+ assert state.get('text_viewer_type') == text_type
\ No newline at end of file
diff --git a/tests/test_gui_updates.py b/tests/test_gui_updates.py
index efc82e5..cfae1e1 100644
--- a/tests/test_gui_updates.py
+++ b/tests/test_gui_updates.py
@@ -17,9 +17,10 @@ from src.gui_2 import App
 def test_telemetry_data_updates_correctly(app_instance: Any) -> None:
   """
   
-    Tests that the _refresh_api_metrics method correctly updates
-    the internal state for display by querying the ai_client.
-    Verifies the boundary between GUI state and API state.
+    
+      Tests that the _refresh_api_metrics method correctly updates
+      the internal state for display by querying the ai_client.
+      Verifies the boundary between GUI state and API state.
   """
   # 1. Set the provider to anthropic
   app_instance._current_provider = "anthropic"
@@ -43,9 +44,10 @@ def test_telemetry_data_updates_correctly(app_instance: Any) -> None:
 def test_performance_history_updates(app_instance: Any) -> None:
   """
   
-    Verify the data structure that feeds the sparkline.
-    This ensures that the rolling buffer for performance telemetry maintains
-    the correct size and default initialization to prevent GUI rendering crashes.
+    
+      Verify the data structure that feeds the sparkline.
+      This ensures that the rolling buffer for performance telemetry maintains
+      the correct size and default initialization to prevent GUI rendering crashes.
   """
   # ANTI-SIMPLIFICATION: Verifying exactly 100 elements ensures the sparkline won't overflow
   assert len(app_instance.perf_history["frame_time"]) == 100
@@ -54,9 +56,10 @@ def test_performance_history_updates(app_instance: Any) -> None:
 def test_gui_updates_on_event(app_instance: App) -> None:
  """
  
-  Verifies that when an API event is received (e.g. from ai_client),
-  the _on_api_event handler correctly updates internal metrics and
-  queues the update to be processed by the GUI event loop.
+  
+   Verifies that when an API event is received (e.g. from ai_client),
+   the _on_api_event handler correctly updates internal metrics and
+   queues the update to be processed by the GUI event loop.
  """
  mock_stats = {"percentage": 50.0, "current": 500, "limit": 1000}
  app_instance.last_md = "mock_md"
diff --git a/tests/test_headless_simulation.py b/tests/test_headless_simulation.py
index b29f4e5..8b03533 100644
--- a/tests/test_headless_simulation.py
+++ b/tests/test_headless_simulation.py
@@ -6,10 +6,11 @@ from src.api_hook_client import ApiHookClient
 async def test_mma_track_lifecycle_simulation():
  """
  
-  This test simulates the sequence of API calls an external orchestrator
-  would make to manage an MMA track lifecycle via the Hook API.
-  It verifies that ApiHookClient correctly routes requests to the 
-  corresponding endpoints in src/api_hooks.py.
+  
+   This test simulates the sequence of API calls an external orchestrator
+   would make to manage an MMA track lifecycle via the Hook API.
+   It verifies that ApiHookClient correctly routes requests to the 
+   corresponding endpoints in src/api_hooks.py.
  """
  
  client = ApiHookClient("http://localhost:8999")
diff --git a/tests/test_headless_verification.py b/tests/test_headless_verification.py
index ddf11aa..662b331 100644
--- a/tests/test_headless_verification.py
+++ b/tests/test_headless_verification.py
@@ -10,10 +10,11 @@ from src import ai_client
 async def test_headless_verification_full_run(vlogger) -> None:
  """
  
-     1. Initialize a ConductorEngine with a Track containing multiple dependent Tickets.
-     2. Simulate a full execution run using engine.run().
-     3. Mock ai_client.send to simulate successful tool calls and final responses.
-     4. Specifically verify that 'Context Amnesia' is maintained.
+  
+      1. Initialize a ConductorEngine with a Track containing multiple dependent Tickets.
+      2. Simulate a full execution run using engine.run().
+      3. Mock ai_client.send to simulate successful tool calls and final responses.
+      4. Specifically verify that 'Context Amnesia' is maintained.
  """
  t1 = Ticket(id="T1", description="Task 1", status="todo", assigned_to="worker1")
  t2 = Ticket(id="T2", description="Task 2", status="todo", assigned_to="worker1", depends_on=["T1"])
@@ -49,8 +50,9 @@ async def test_headless_verification_full_run(vlogger) -> None:
 async def test_headless_verification_error_and_qa_interceptor(vlogger) -> None:
  """
  
-     5. Simulate a shell error and verify that the Tier 4 QA interceptor is triggered 
-        and its summary is injected into the worker's history for the next retry.
+  
+      5. Simulate a shell error and verify that the Tier 4 QA interceptor is triggered 
+         and its summary is injected into the worker's history for the next retry.
  """
  t1 = Ticket(id="T1", description="Task with error", status="todo", assigned_to="worker1")
  track = Track(id="track_error", description="Error Track", tickets=[t1])
diff --git a/tests/test_layout_reorganization.py b/tests/test_layout_reorganization.py
index 10cb625..bd55f98 100644
--- a/tests/test_layout_reorganization.py
+++ b/tests/test_layout_reorganization.py
@@ -12,8 +12,9 @@ from src.gui_2 import App
 def test_new_hubs_defined_in_show_windows(mock_app: App) -> None:
  """
  
-  Verifies that the new consolidated Hub windows are defined in the App's show_windows.
-  This ensures they will be available in the 'Windows' menu.
+  
+   Verifies that the new consolidated Hub windows are defined in the App's show_windows.
+   This ensures they will be available in the 'Windows' menu.
  """
  expected_hubs = [
   "Project Settings",
@@ -27,7 +28,8 @@ def test_new_hubs_defined_in_show_windows(mock_app: App) -> None:
 def test_old_windows_removed_from_gui2(app_instance_simple: Any) -> None:
  """
  
-  Verifies that the old fragmented windows are removed or renamed.
+  
+   Verifies that the old fragmented windows are removed or renamed.
  """
  old_tags = [
   "win_projects", "win_files", "win_screenshots",
@@ -54,7 +56,8 @@ def app_instance_simple() -> Any:
 def test_hub_windows_exist_in_gui2(app_instance_simple: Any) -> None:
  """
  
-  Verifies that the new Hub windows are present in the show_windows dictionary.
+  
+   Verifies that the new Hub windows are present in the show_windows dictionary.
  """
  hubs = ["Project Settings", "AI Settings", "Discussion Hub", "Operations Hub"]
  for hub in hubs:
@@ -63,7 +66,8 @@ def test_hub_windows_exist_in_gui2(app_instance_simple: Any) -> None:
 def test_indicators_logic_exists(app_instance_simple: Any) -> None:
  """
  
-  Verifies that the status indicators logic exists in the App.
+  
+   Verifies that the status indicators logic exists in the App.
  """
  assert hasattr(app_instance_simple, 'ai_status')
  assert hasattr(app_instance_simple, 'mma_status')
\ No newline at end of file
diff --git a/tests/test_live_gui_integration_v2.py b/tests/test_live_gui_integration_v2.py
index b408913..6acd552 100644
--- a/tests/test_live_gui_integration_v2.py
+++ b/tests/test_live_gui_integration_v2.py
@@ -14,11 +14,12 @@ from src.api_hook_client import ApiHookClient
 def test_user_request_integration_flow(mock_app: App) -> None:
  """
  
-  Verifies that pushing a UserRequestEvent to the event_queue:
-  1. Triggers ai_client.send
-  2. Results in a 'response' event back to the queue
-  3. Eventually updates the UI state (ai_response, ai_status) after processing GUI tasks.
-  ANTI-SIMPLIFICATION: This verifies the full cross-thread boundary.
+  
+   Verifies that pushing a UserRequestEvent to the event_queue:
+   1. Triggers ai_client.send
+   2. Results in a 'response' event back to the queue
+   3. Eventually updates the UI state (ai_response, ai_status) after processing GUI tasks.
+   ANTI-SIMPLIFICATION: This verifies the full cross-thread boundary.
  """
  app = mock_app
  # Mock all ai_client methods called during _handle_request_event
@@ -76,7 +77,8 @@ def test_user_request_integration_flow(mock_app: App) -> None:
 def test_user_request_error_handling(mock_app: App) -> None:
  """
  
-     Verifies that if ai_client.send raises an exception, the UI is updated with the error state.
+  
+      Verifies that if ai_client.send raises an exception, the UI is updated with the error state.
  """
  app = mock_app
  with (
diff --git a/tests/test_live_workflow.py b/tests/test_live_workflow.py
index c2e1202..b31043f 100644
--- a/tests/test_live_workflow.py
+++ b/tests/test_live_workflow.py
@@ -16,7 +16,8 @@ from src.api_hook_client import ApiHookClient
 def wait_for_value(client, field, expected, timeout=10):
  """
  
-  Helper to poll the GUI state until a field matches the expected value.
+  
+   Helper to poll the GUI state until a field matches the expected value.
  """
  start = time.time()
  while time.time() - start < timeout:
@@ -31,9 +32,10 @@ def wait_for_value(client, field, expected, timeout=10):
 def test_full_live_workflow(live_gui) -> None:
  """
  
-  Integration test that drives the GUI through a full workflow.
-  ANTI-SIMPLIFICATION: Asserts exact AI behavior, thinking state tracking,
-  and response logging in discussion history.
+  
+   Integration test that drives the GUI through a full workflow.
+   ANTI-SIMPLIFICATION: Asserts exact AI behavior, thinking state tracking,
+   and response logging in discussion history.
  """
  client = ApiHookClient()
  assert client.wait_for_server(timeout=10)
diff --git a/tests/test_mma_approval_indicators.py b/tests/test_mma_approval_indicators.py
index b04bc26..1ce30d7 100644
--- a/tests/test_mma_approval_indicators.py
+++ b/tests/test_mma_approval_indicators.py
@@ -6,7 +6,7 @@ from src.gui_2 import App
 
 def _make_app(**kwargs):
  """
- [C: tests/test_mma_dashboard_streams.py:TestMMADashboardStreams.test_tier1_renders_stream_content, tests/test_mma_dashboard_streams.py:TestMMADashboardStreams.test_tier3_renders_worker_subheaders]
+  [C: tests/test_mma_dashboard_streams.py:TestMMADashboardStreams.test_tier1_renders_stream_content, tests/test_mma_dashboard_streams.py:TestMMADashboardStreams.test_tier3_renders_worker_subheaders]
  """
  app = MagicMock()
  app.mma_streams = kwargs.get("mma_streams", {})
@@ -65,7 +65,7 @@ def _make_app(**kwargs):
 
 def _make_imgui_mock():
  """
- [C: tests/test_mma_dashboard_streams.py:TestMMADashboardStreams.test_tier1_renders_stream_content, tests/test_mma_dashboard_streams.py:TestMMADashboardStreams.test_tier3_renders_worker_subheaders]
+  [C: tests/test_mma_dashboard_streams.py:TestMMADashboardStreams.test_tier1_renders_stream_content, tests/test_mma_dashboard_streams.py:TestMMADashboardStreams.test_tier3_renders_worker_subheaders]
  """
  m = MagicMock()
  m.begin_table.return_value = False
diff --git a/tests/test_mma_concurrent_tracks_sim.py b/tests/test_mma_concurrent_tracks_sim.py
index 9c36a39..9dc131f 100644
--- a/tests/test_mma_concurrent_tracks_sim.py
+++ b/tests/test_mma_concurrent_tracks_sim.py
@@ -11,7 +11,8 @@ from src import api_hook_client
 
 def _poll_mma_status(client, timeout, condition, label):
  """
- Poll get_mma_status() until condition(status) is True or timeout.
+ 
+  Poll get_mma_status() until condition(status) is True or timeout.
   [C: tests/test_mma_step_mode_sim.py:test_mma_step_mode_approval_flow]
  """
  last_status = {}
@@ -28,9 +29,10 @@ def _poll_mma_status(client, timeout, condition, label):
 def test_mma_concurrent_tracks_execution(live_gui) -> None:
  """
  
-  Stress test for concurrent MMA track execution.
-  Verifies that starting multiple tracks simultaneously doesn't cause crashes
-  and that workers from both tracks are processed.
+  
+   Stress test for concurrent MMA track execution.
+   Verifies that starting multiple tracks simultaneously doesn't cause crashes
+   and that workers from both tracks are processed.
  """
  client = api_hook_client.ApiHookClient()
  assert client.wait_for_server(timeout=15), "Hook server did not start"
diff --git a/tests/test_mma_concurrent_tracks_stress_sim.py b/tests/test_mma_concurrent_tracks_stress_sim.py
index d7c68b3..092fbd1 100644
--- a/tests/test_mma_concurrent_tracks_stress_sim.py
+++ b/tests/test_mma_concurrent_tracks_stress_sim.py
@@ -25,8 +25,9 @@ def _poll_mma_workers(client: api_hook_client.ApiHookClient, timeout: int, condi
 def test_mma_concurrent_tracks_stress(live_gui) -> None:
  """
  
-     Stress test: Start two tracks concurrently and verify they both progress
-     without crashing the GUI or losing state.
+  
+      Stress test: Start two tracks concurrently and verify they both progress
+      without crashing the GUI or losing state.
  """
  client = api_hook_client.ApiHookClient()
  assert client.wait_for_server(timeout=15), "Hook server did not start"
diff --git a/tests/test_mma_models.py b/tests/test_mma_models.py
index 2e44c7d..5fda5b1 100644
--- a/tests/test_mma_models.py
+++ b/tests/test_mma_models.py
@@ -3,8 +3,9 @@ from src.models import Ticket, Track, WorkerContext
 def test_ticket_instantiation() -> None:
  """
  
-     Verifies that a Ticket can be instantiated with its required fields:
-     id, description, status, assigned_to.
+  
+      Verifies that a Ticket can be instantiated with its required fields:
+      id, description, status, assigned_to.
  """
  ticket_id = "T1"
  description = "Implement surgical code changes"
@@ -25,7 +26,8 @@ def test_ticket_instantiation() -> None:
 def test_ticket_with_dependencies() -> None:
  """
  
-     Verifies that a Ticket can store dependencies.
+  
+      Verifies that a Ticket can store dependencies.
  """
  ticket = Ticket(
   id="T2",
@@ -39,8 +41,9 @@ def test_ticket_with_dependencies() -> None:
 def test_track_instantiation() -> None:
  """
  
-     Verifies that a Track can be instantiated with its required fields:
-     id, description, and a list of Tickets.
+  
+      Verifies that a Track can be instantiated with its required fields:
+      id, description, and a list of Tickets.
  """
  ticket1 = Ticket(id="T1", description="Task 1", status="todo", assigned_to="a")
  ticket2 = Ticket(id="T2", description="Task 2", status="todo", assigned_to="b")
@@ -61,7 +64,8 @@ def test_track_instantiation() -> None:
 def test_track_can_handle_empty_tickets() -> None:
  """
  
-     Verifies that a Track can be instantiated with an empty list of tickets.
+  
+      Verifies that a Track can be instantiated with an empty list of tickets.
  """
  track = Track(id="TRACK-2", description="Empty Track", tickets=[])
  assert track.tickets == []
@@ -69,8 +73,9 @@ def test_track_can_handle_empty_tickets() -> None:
 def test_worker_context_instantiation() -> None:
  """
  
-     Verifies that a WorkerContext can be instantiated with ticket_id, 
-     model_name, and messages.
+  
+      Verifies that a WorkerContext can be instantiated with ticket_id, 
+      model_name, and messages.
  """
  ticket_id = "T1"
  model_name = "gemini-2.0-flash-lite"
@@ -90,8 +95,9 @@ def test_worker_context_instantiation() -> None:
 def test_ticket_mark_blocked() -> None:
  """
  
-     Verifies that ticket.mark_blocked(reason) sets the status to 'blocked'.
-     Note: The reason field might need to be added to the Ticket class.
+  
+      Verifies that ticket.mark_blocked(reason) sets the status to 'blocked'.
+      Note: The reason field might need to be added to the Ticket class.
  """
  ticket = Ticket(id="T1", description="Task 1", status="todo", assigned_to="a")
  ticket.mark_blocked("Waiting for API key")
@@ -100,7 +106,8 @@ def test_ticket_mark_blocked() -> None:
 def test_ticket_mark_complete() -> None:
  """
  
-     Verifies that ticket.mark_complete() sets the status to 'completed'.
+  
+      Verifies that ticket.mark_complete() sets the status to 'completed'.
  """
  ticket = Ticket(id="T1", description="Task 1", status="todo", assigned_to="a")
  ticket.mark_complete()
@@ -109,8 +116,9 @@ def test_ticket_mark_complete() -> None:
 def test_track_get_executable_tickets() -> None:
  """
  
-     Verifies that track.get_executable_tickets() returns only 'todo' tickets
-     whose dependencies are all 'completed'.
+  
+      Verifies that track.get_executable_tickets() returns only 'todo' tickets
+      whose dependencies are all 'completed'.
  """
  # T1: todo, no deps -> executable
  t1 = Ticket(id="T1", description="T1", status="todo", assigned_to="a")
@@ -134,10 +142,11 @@ def test_track_get_executable_tickets() -> None:
 def test_track_get_executable_tickets_complex() -> None:
  """
  
-     Verifies executable tickets with complex dependency chains.
-     Chain: T1 (comp) -> T2 (todo) -> T3 (todo)
-            T4 (comp) -> T3
-            T5 (todo) -> T3
+  
+      Verifies executable tickets with complex dependency chains.
+      Chain: T1 (comp) -> T2 (todo) -> T3 (todo)
+             T4 (comp) -> T3
+             T5 (todo) -> T3
  """
  t1 = Ticket(id="T1", description="T1", status="completed", assigned_to="a")
  t2 = Ticket(id="T2", description="T2", status="todo", assigned_to="a", depends_on=["T1"])
diff --git a/tests/test_mma_step_mode_sim.py b/tests/test_mma_step_mode_sim.py
index aff5902..13a27e0 100644
--- a/tests/test_mma_step_mode_sim.py
+++ b/tests/test_mma_step_mode_sim.py
@@ -24,7 +24,8 @@ def _poll_mma_status(client: api_hook_client.ApiHookClient, timeout: int, condit
 def test_mma_step_mode_approval_flow(live_gui) -> None:
  """
  
-     Verify that we can manually approve a ticket in Step Mode and it proceeds.
+  
+      Verify that we can manually approve a ticket in Step Mode and it proceeds.
  """
  client = api_hook_client.ApiHookClient()
  assert client.wait_for_server(timeout=15), "Hook server did not start"
diff --git a/tests/test_patch_modal_gui.py b/tests/test_patch_modal_gui.py
index bfe537e..2fa968b 100644
--- a/tests/test_patch_modal_gui.py
+++ b/tests/test_patch_modal_gui.py
@@ -13,8 +13,9 @@ from src import api_hook_client
 def test_patch_modal_appears_on_trigger(live_gui) -> None:
  """
  
-     Test that triggering a patch shows the modal in the GUI.
-     Uses live_gui fixture to start the GUI with test hooks enabled.
+  
+      Test that triggering a patch shows the modal in the GUI.
+      Uses live_gui fixture to start the GUI with test hooks enabled.
  """
  proc, _ = live_gui
  client = api_hook_client.ApiHookClient()
@@ -51,7 +52,8 @@ def test_patch_modal_appears_on_trigger(live_gui) -> None:
 def test_patch_apply_modal_workflow(live_gui) -> None:
  """
  
-     Test the full patch apply workflow: trigger -> apply -> verify modal closes.
+  
+      Test the full patch apply workflow: trigger -> apply -> verify modal closes.
  """
  proc, _ = live_gui
  client = api_hook_client.ApiHookClient()
diff --git a/tests/test_process_pending_gui_tasks.py b/tests/test_process_pending_gui_tasks.py
index 7ede74b..9e8ab61 100644
--- a/tests/test_process_pending_gui_tasks.py
+++ b/tests/test_process_pending_gui_tasks.py
@@ -65,4 +65,4 @@ def test_process_pending_gui_tasks_right_click(app_instance: App) -> None:
   {"action": "right_click", "item": "item_id"}
  ]
  app_instance.controller._process_pending_gui_tasks()
- mock_callback.assert_called_once()
+ mock_callback.assert_called_once()
\ No newline at end of file
diff --git a/tests/test_rag_integration.py b/tests/test_rag_integration.py
index 5ddaa24..733cc8e 100644
--- a/tests/test_rag_integration.py
+++ b/tests/test_rag_integration.py
@@ -25,7 +25,8 @@ def mock_project():
 def test_rag_integration(mock_project):
  """
  
-  Integration test verifying the flow from AppController through RAGEngine to ai_client.
+  
+   Integration test verifying the flow from AppController through RAGEngine to ai_client.
  """
  # 1. Initializes a mock project and AppController.
  # We patch several components to avoid side effects during initialization.
diff --git a/tests/test_run_worker_lifecycle_abort.py b/tests/test_run_worker_lifecycle_abort.py
index bc99173..2aa75c3 100644
--- a/tests/test_run_worker_lifecycle_abort.py
+++ b/tests/test_run_worker_lifecycle_abort.py
@@ -10,8 +10,9 @@ class TestRunWorkerLifecycleAbort(unittest.TestCase):
  def test_run_worker_lifecycle_returns_early_on_abort(self):
   """
   
-    Test that run_worker_lifecycle returns early and marks ticket as 'killed'
-    if the abort event is set for the ticket.
+    
+      Test that run_worker_lifecycle returns early and marks ticket as 'killed'
+      if the abort event is set for the ticket.
   """
   # Mock ai_client.send
   with patch('src.ai_client.send') as mock_send:
diff --git a/tests/test_selectable_ui.py b/tests/test_selectable_ui.py
index 1d30ca0..4d507b5 100644
--- a/tests/test_selectable_ui.py
+++ b/tests/test_selectable_ui.py
@@ -13,8 +13,9 @@ from src.gui_2 import App
 def test_selectable_label_stability(live_gui) -> None:
  """
  
-  Verifies that the application starts correctly with --enable-test-hooks
-  and that the selectable label infrastructure is present and stable.
+  
+   Verifies that the application starts correctly with --enable-test-hooks
+   and that the selectable label infrastructure is present and stable.
  """
  client = ApiHookClient()
  assert client.wait_for_server(timeout=20), "Hook server failed to start"
diff --git a/tests/test_sim_ai_settings.py b/tests/test_sim_ai_settings.py
index a2699b5..afa4f86 100644
--- a/tests/test_sim_ai_settings.py
+++ b/tests/test_sim_ai_settings.py
@@ -16,8 +16,9 @@ from simulation.sim_ai_settings import AISettingsSimulation
 def test_ai_settings_simulation_run() -> None:
  """
  
-  Verifies that AISettingsSimulation correctly cycles through models
-  to test the settings UI components.
+  
+   Verifies that AISettingsSimulation correctly cycles through models
+   to test the settings UI components.
  """
  mock_client = MagicMock()
  mock_client.wait_for_server.return_value = True
diff --git a/tests/test_sim_base.py b/tests/test_sim_base.py
index 017236d..0cad27a 100644
--- a/tests/test_sim_base.py
+++ b/tests/test_sim_base.py
@@ -16,7 +16,8 @@ from simulation.sim_base import BaseSimulation
 def test_base_simulation_init() -> None:
  """
  
-  Verifies that the BaseSimulation initializes the ApiHookClient correctly.
+  
+   Verifies that the BaseSimulation initializes the ApiHookClient correctly.
  """
  with patch('simulation.sim_base.ApiHookClient') as mock_client_class:
   mock_client = MagicMock()
@@ -29,8 +30,9 @@ def test_base_simulation_init() -> None:
 def test_base_simulation_setup() -> None:
  """
  
-  Verifies that the setup routine correctly resets the GUI state
-  and initializes a clean temporary project for simulation.
+  
+   Verifies that the setup routine correctly resets the GUI state
+   and initializes a clean temporary project for simulation.
  """
  mock_client = MagicMock()
  mock_client.wait_for_server.return_value = True
diff --git a/tests/test_sim_context.py b/tests/test_sim_context.py
index d728b56..3a6f203 100644
--- a/tests/test_sim_context.py
+++ b/tests/test_sim_context.py
@@ -16,8 +16,9 @@ from simulation.sim_context import ContextSimulation
 def test_context_simulation_run() -> None:
  """
  
-  Verifies that the ContextSimulation runs the correct sequence of user actions:
-  discussion switching, context building (md_only), and history truncation.
+  
+   Verifies that the ContextSimulation runs the correct sequence of user actions:
+   discussion switching, context building (md_only), and history truncation.
  """
  mock_client = MagicMock()
  mock_client.wait_for_server.return_value = True
diff --git a/tests/test_sim_execution.py b/tests/test_sim_execution.py
index 4c04672..6b23c40 100644
--- a/tests/test_sim_execution.py
+++ b/tests/test_sim_execution.py
@@ -16,8 +16,9 @@ from simulation.sim_execution import ExecutionSimulation
 def test_execution_simulation_run() -> None:
  """
  
-  Verifies that ExecutionSimulation handles script confirmation modals.
-  Ensures that it waits for the modal and clicks the approve button.
+  
+   Verifies that ExecutionSimulation handles script confirmation modals.
+   Ensures that it waits for the modal and clicks the approve button.
  """
  mock_client = MagicMock()
  mock_client.wait_for_server.return_value = True
diff --git a/tests/test_sim_tools.py b/tests/test_sim_tools.py
index 17f38d0..d8bc21d 100644
--- a/tests/test_sim_tools.py
+++ b/tests/test_sim_tools.py
@@ -16,8 +16,9 @@ from simulation.sim_tools import ToolsSimulation
 def test_tools_simulation_run() -> None:
  """
  
-  Verifies that ToolsSimulation requests specific tool executions
-  and verifies they appear in the resulting session history.
+  
+   Verifies that ToolsSimulation requests specific tool executions
+   and verifies they appear in the resulting session history.
  """
  mock_client = MagicMock()
  mock_client.wait_for_server.return_value = True
diff --git a/tests/test_system_prompt_sim.py b/tests/test_system_prompt_sim.py
index 70ad8a1..d235e44 100644
--- a/tests/test_system_prompt_sim.py
+++ b/tests/test_system_prompt_sim.py
@@ -7,13 +7,14 @@ import os
 def test_system_prompt_sim(live_gui):
  """
  
-  Simulation test for system prompt settings.
-  1. Wait for server.
-  2. Verify initial state.
-  3. Modify settings via API.
-  4. Verify updates.
-  5. Use 'Reset to Default' button via API.
-  6. Verify restoration to default text.
+  
+   Simulation test for system prompt settings.
+   1. Wait for server.
+   2. Verify initial state.
+   3. Modify settings via API.
+   4. Verify updates.
+   5. Use 'Reset to Default' button via API.
+   6. Verify restoration to default text.
  """
  _, gui_script = live_gui
  client = ApiHookClient()
@@ -68,4 +69,4 @@ def test_system_prompt_sim(live_gui):
  
  # Close it
  client.set_value('show_base_prompt_diff_modal', False)
- assert client.get_value('show_base_prompt_diff_modal') is False
+ assert client.get_value('show_base_prompt_diff_modal') is False
\ No newline at end of file
diff --git a/tests/test_tier4_interceptor.py b/tests/test_tier4_interceptor.py
index 03bebce..d20d88c 100644
--- a/tests/test_tier4_interceptor.py
+++ b/tests/test_tier4_interceptor.py
@@ -62,9 +62,10 @@ def test_run_powershell_optional_qa_callback() -> None:
 
 def test_end_to_end_tier4_integration(vlogger) -> None:
   """
-  1. Start a task that triggers a tool failure.
-       2. Ensure Tier 4 QA analysis is run.
-       3. Verify the analysis is merged into the next turn's prompt.
+  
+    1. Start a task that triggers a tool failure.
+         2. Ensure Tier 4 QA analysis is run.
+         3. Verify the analysis is merged into the next turn's prompt.
   """
   # Trigger a send that results in a tool failure
   # (In reality, the tool loop handles this)
diff --git a/tests/test_track_state_persistence.py b/tests/test_track_state_persistence.py
index c681409..3db453c 100644
--- a/tests/test_track_state_persistence.py
+++ b/tests/test_track_state_persistence.py
@@ -8,11 +8,12 @@ from src.project_manager import save_track_state, load_track_state
 def test_track_state_persistence(tmp_path) -> None:
  """
  
-     Tests saving and loading a TrackState object to/from a TOML file.
-     1. Create a TrackState object with sample metadata, discussion, and tasks.
-     2. Call save_track_state('test_track', state, base_dir).
-     3. Verify that base_dir/conductor/tracks/test_track/state.toml exists.
-     4. Call load_track_state('test_track', base_dir) and verify it returns an identical TrackState object.
+  
+      Tests saving and loading a TrackState object to/from a TOML file.
+      1. Create a TrackState object with sample metadata, discussion, and tasks.
+      2. Call save_track_state('test_track', state, base_dir).
+      3. Verify that base_dir/conductor/tracks/test_track/state.toml exists.
+      4. Call load_track_state('test_track', base_dir) and verify it returns an identical TrackState object.
  """
  base_dir = tmp_path
  track_id = "test-track-999" # Metadata internal ID
diff --git a/tests/test_tree_sitter_setup.py b/tests/test_tree_sitter_setup.py
index 9306c01..341cceb 100644
--- a/tests/test_tree_sitter_setup.py
+++ b/tests/test_tree_sitter_setup.py
@@ -4,8 +4,9 @@ from tree_sitter import Language, Parser
 def test_tree_sitter_python_setup() -> None:
  """
  
-     Verifies that tree-sitter and tree-sitter-python are correctly installed
-     and can parse a simple Python function string.
+  
+      Verifies that tree-sitter and tree-sitter-python are correctly installed
+      and can parse a simple Python function string.
  """
  # Initialize the Python language and parser
  PY_LANGUAGE = Language(tspython.language())
diff --git a/tests/test_visual_sim_mma_v2.py b/tests/test_visual_sim_mma_v2.py
index 0b73f5e..4d568b5 100644
--- a/tests/test_visual_sim_mma_v2.py
+++ b/tests/test_visual_sim_mma_v2.py
@@ -56,9 +56,10 @@ def _poll(client: api_hook_client.ApiHookClient, timeout: int, condition, label:
 def test_mma_complete_lifecycle(live_gui) -> None:
  """
  
-     End-to-end MMA lifecycle using real Gemini API (gemini-2.5-flash-lite).
-     Incorporates frame-sync sleeps and explicit state-transition waits per
-     simulation_hardening_20260301 spec (Issues 2 & 3).
+  
+      End-to-end MMA lifecycle using real Gemini API (gemini-2.5-flash-lite).
+      Incorporates frame-sync sleeps and explicit state-transition waits per
+      simulation_hardening_20260301 spec (Issues 2 & 3).
  """
  client = api_hook_client.ApiHookClient()
  assert client.wait_for_server(timeout=15), "Hook server did not start"
diff --git a/tests/test_workspace_profiles_sim.py b/tests/test_workspace_profiles_sim.py
index 490dc14..0e4f8eb 100644
--- a/tests/test_workspace_profiles_sim.py
+++ b/tests/test_workspace_profiles_sim.py
@@ -14,12 +14,13 @@ from src import api_hook_client
 def test_workspace_profiles_restoration(live_gui):
  """
  
-  Verifies that workspace profiles can save and restore UI state.
-  1. Sets a field (ui_separate_tier1) to True.
-  2. Saves a workspace profile.
-  3. Resets the field to False.
-  4. Loads the workspace profile.
-  5. Verifies the field is restored to True.
+  
+   Verifies that workspace profiles can save and restore UI state.
+   1. Sets a field (ui_separate_tier1) to True.
+   2. Saves a workspace profile.
+   3. Resets the field to False.
+   4. Loads the workspace profile.
+   5. Verifies the field is restored to True.
  """
  client = api_hook_client.ApiHookClient()
  assert client.wait_for_server(timeout=20), "Hook server did not start"