fix: Address Gemini Code Assist review feedback

- Repository URL consistency: Updated all references to BeehiveInnovations/zen-mcp-server format
- Documentation clarity: Fixed misleading table headers and improved Docker configuration examples
- File conventions: Added missing final newlines to all files
- Configuration consistency: Clarified API key placeholder format in documentation

Addresses all points raised in PR #17 review by Gemini Code Assist.

🤖 Generated with Claude Code

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

.github/workflows/auto-version.yml

@@ -244,4 +244,5 @@ jobs:
           echo "PR title prefix did not require a version bump." >> $GITHUB_STEP_SUMMARY
           echo "- **PR**: #${{ github.event.pull_request.number }}" >> $GITHUB_STEP_SUMMARY
           echo "- **Title**: ${{ github.event.pull_request.title }}" >> $GITHUB_STEP_SUMMARY
-        fi
+        fi
+