A lot of people use notation #1 to do namespacing by using objects, eg

  var MyProject = {};
  MyProject.func = function() {}

If you ever want to assign a function to an object, you might as well do it with global-scope functions. Most debuggers/profilers I am aware of can handle this notation well. If they don't, there is still the possibility of doing

  var Box = function Box (a, b) {}

The function does not have to be anonymous!