I recently bought a wired Xbox 360 controller and can confirm that:
1) The default configuration works perfectly.
2) However, if you remap the buttons some of them don't work, are left blank when pressing a button or are displaying the wrong button. For example try to remap Run and you will see what I mean.
3) Updating from SDL 2.0.0 to the latest 2.0.1 version does not fix the issue. It must be a game error.
Jens: If you don't have a xbox 360 controller you can tell me to do some testing for you if you want. No problem.