It actually does support humanoid custom animations. I suppose I haven't really covered exactly how to do this. I'll try to summarize it right here:

-Make a new mecanim animation controller.
-Add an additional animation layer to the controller.
-Drag in all your animations you wish to use into both layers(don't worry about transitions or linking any together).
-Assign your new controller to your characters animation controller.
-Assign your animations in the character setup and it should work.

Hope this helps.

Thanks for the response