conductor(plan): Checkpoint Phase 2
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- [x] Task: Document identified hidden prompts and determine their necessity vs. redundancy.
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- [x] Task: Conductor - User Manual Verification 'Phase 1: Audit and Identification' (Protocol in workflow.md)
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## Phase 2: Expose Necessary Prompts in GUI
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## Phase 2: Expose Necessary Prompts in GUI [checkpoint: 3b59028]
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- [x] Task: Modify `src/gui_2.py` to add new editable text areas in the "AI Settings" or "Project Settings" panel.
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- [x] Create fields for global system tool instructions.
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- [x] Create fields for project-specific context markers.
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