Convert partial level 3 files to typescript for contributing to `metamask-controller.js`

Convert dependency of files for metamask-controller.js (level 2) we want to target based on typescript migration dashboard.

**_Level 3_**

- App/scripts/controllers/alert.js
- App/scripts/controllers/app-state.js
- App/scripts/controllers/onboarding.js
- App/scripts/controllers/permissions/index
- app/scripts/detect-multiple-instances.js
- app/scripts/lib/account-tracker.js
- app/scripts/lib/createLoggerMiddleware.js
- app/scripts/lib/createOnboardingMiddleware.js
- app/scripts/lib/createOriginMiddleware.js
- app/scripts/lib/createTabIdMiddleware.js
- app/scripts/lib/rpc-method-middleware/index.js
- app/scripts/lib/stream-utils.js

Start with the TypeScript migration dashboard and inspect the listed Level 3 JavaScript files, including the controllers, middleware, and utility modules that support metamask-controller.js. Done means the listed files have been converted to TypeScript in line with the dashboard's migration scope.

Written by the indexing model from the issue text.