# Documentation Organization Summary

## Overview
Successfully implemented the documentation organization specification from `docs/todo/documentation-organization-spec.md`.

## Structure Created
```
docs/
├── archive/              # General archived documents
├── bugs/
│   ├── active/          # 5 active bug reports
│   └── archived/        # 8 resolved bug reports
├── kaizen/              # Kaizen-related documentation
├── system-status/       # System status reports
└── todo/
    ├── active/          # 59 active specifications
    └── archive/         # 6 implemented specifications
```

## Changes Made

### 1. Bug Documentation
- **Active Bugs (5)**: Unresolved issues requiring attention
  - annotated-ast-bugs-june4.md
  - deep-context-satd-integration-bug.md
  - enhance-report-jun2-spec.md
  - fix-deep-context-report-bug.md
  - mermaid-empty-dag-generation.md

- **Archived Bugs (8)**: Resolved issues with fix documentation
  - demo-hot-fix-v20.md (marked as RESOLVED)
  - mermaid-empty-bug.md (comprehensive fix implemented)
  - Plus 6 previously archived bugs

### 2. Specification Documentation
- **Active Specs (59)**: Pending or incomplete implementations
  - Including: carbon-metric-spec.md, big-o-annotation-spec.md, post-kaizen-022-continue.md
  - Empty specs that need development
  - Specs requiring investigation for completion status

- **Archived Specs (6)**: Completed implementations
  - kaizen-022-spec.md (Phase 4 COMPLETED ✅)
  - binary-size-improvement-spec.md (IMPLEMENTATION COMPLETE ✅)
  - c-lang-ast-support-spec.md (parsers implemented)
  - comprehensive-cli-tests-spec.md (tests implemented)
  - qa-v2-pmat.md (framework integrated)
  - ast-enhanced-with-verifiable-proofs-spec.md (analyzer implemented)

### 3. Root Directory Cleanup
- Moved all non-essential MD files from root
- Preserved only: README.md, RELEASE_NOTES.md, CLAUDE.md
- Created `docs/kaizen/` for kaizen-related documents
- Validation: `find . -maxdepth 1 -name "*.md" | grep -v -E "(README|RELEASE_NOTES|CLAUDE)\.md"` returns 0 results

### 4. Rust Documentation
- Regenerated using `make docs`
- Documentation available at `target/doc/paiml_mcp_agent_toolkit/index.html`
- Reflects current architecture and implementations

## Validation
✅ No extra MD files in root directory
✅ Proper bug categorization (active vs archived)
✅ Proper spec categorization (active vs archived)
✅ Documentation structure follows specification
✅ Rust docs regenerated successfully

## Next Steps
1. Review active bugs for prioritization
2. Assess active specs for implementation roadmap
3. Maintain documentation organization going forward