refactor: Reorganize root directory structure

- Move generated reports to reports/repomix/
- Move example config to examples/config/
- Remove BACKLOG.md and GITHUB_ISSUES.md from root
- Remove obsolete backlog_to_issues.py script
- Update code and tests to use new directory paths
- Update documentation references

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>

Author: jeremyeder

.github/workflows/update-docs.yml

@@ -67,7 +67,7 @@ The \`github-pages-docs\` agent requires Claude Code's specialized documentation
 
 ### Future Automation
 
-See \`BACKLOG.md\` - "Documentation Source Truth and Cascade System" (P2) for plans to automate this workflow.
+Plans to automate this workflow are tracked in GitHub issues with the "documentation" label.
 
 ---
 

.gitignore

@@ -49,6 +49,7 @@ coverage.xml
 
 # Project specific
 .agentready/
+reports/
 *.log
 *.tmp
 
@@ -58,4 +59,4 @@ coverage.xml
 
 # Configuration (exclude example)
 .agentready-config.yaml
-!.agentready-config.example.yaml
+!examples/config/agentready-config.example.yaml