DirectX gets its SLI / CF settings from the CP, and games have practically no control over that as far as I know. With Mantle, it's up to the developer to include multi-GPU support, and the user can't force anything.
That is a far more complex subject - as per the rest of my post below that can be very useful for some of the bigger studios but most developers using off the shelf/middleware probably won't have the resources to implement something like that and still need to rely on driver level support.
The problem with forcing SFR is if the game isn't optimized to use this method you get some very bad glitches. Its highly recommend you never use SFR unless the game is made to use it.
Yeah if stuff is being referenced inta-frame or even inter-frame for post processing, etc. it can go very bad if the game doesn't know how to handle that.