chore(workflows): disable all GitHub Actions workflows

- Add `workflow: disable: true` to 23 workflow files to temporarily disable CI/CD automation
- Affects agent-contributions, build-macos-packages, ci, cli-tests, comprehensive-tests, configuration-security, contracts-ci, dotenv-check, file-organization, markdown-link-check, phase8-integration, production-deploy, publish-github-packages, publish-native-packages-simple, publish-native-packages, publish-npm-packages, publish-packages-to-registry

.github/workflows/publish-github-packages.yml

@@ -312,3 +312,5 @@ jobs:
         git add packages/github/packages/PACKAGE_INDEX.md
         git diff --staged --quiet || git commit -m "Update package index for version ${{ github.ref_name || github.event.inputs.version }}"
         git push
+workflow:
+  disable: true