YES, you can change the controller settings on a game specific basis.
To get started with your customized controls you'll need to make sure you have a few things.
- Make sure your Backbone app and iOS are up to date!
- Make sure you have your Backbone plugged in when you want to change the controls.
Then head over to your iPhone Settings > General > Game Controller > Custom Controls
For game specific controls, simply press Add App at the bottom!