use.js from a real app

config.js

require.config({
...
    use: {
      // Libraries
      backbone: {
        deps: ["use!underscore", "jquery"],
        attach: "Backbone"
      },

      underscore: {
        attach: "_"
      },

      combyne: {
        attach: "combyne"
      },

      phonegap: {
        attach: "PhoneGap"
      },

      // Plugins
      "plugins/NativeControls": {
        deps: ["use!phonegap"],
        attach: "plugins"
      },

      "plugins/backbone.layoutmanager": {
        deps: ["use!backbone"]
      },

      "plugins/backbone.memento": {
        deps: ["use!backbone"]
      },
      
      "plugins/vertebrae": {
        deps: ["use!backbone"]
      }
    }
  }

include.js

define([
  "namespace",
  "use!backbone",

  // Modules
  "util",
  "use!phonegap",
  "use!plugins/NativeControls",
],

function(myapp, Backbone, Util, PhoneGap, NativeControls) {
...
});

Thanks for the heads up @quartzmo