Using Unity 5.3’s new Scene Manager can be quite challenging. There’s some basic stuff that’s missing. One of these is the ability to reload the current additive scene.
Here’s my quick hack to make it work at run-time. This doesn’t go so well in the editor, though, as the scene manager doesn’t allow you to unload scenes loaded in the editor.
http://pastebin.com/My8q2b1v
This will let you reload the scene at runtime using “R”.