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/cli-tests.yml

@@ -44,3 +44,5 @@ jobs:
         with:
           name: cli-coverage-report
           path: coverage.xml
+workflow:
+  disable: true