My boilerplate for Node.js powered multi-page sites with Gulp, Sass, Browserify, ES6, Postgres, Handlebars and Chai-tests.
All files/folders added into app/controllers are automatically added to the controller-object which is then available in app/router.js. To create a new controller simply add a folder, say auth in app/controllers/ and then add method-files in auth or add a sub-folder into auth, say login and then a method file facebook-login.js. The controller will then be accessable in the router file as controller.auth.facebookLogin.
Note that both files/folders are to be written with dash-delimiter-separation and are then accessable in lower camel case in the controllers object.
All middleware are to be handled in middleware/index.js at the current moment there is no automation of middlewares so to add a middleware you actually need to add it to the index.js.