You should add this in the registry instead of the config file, this way we won't have to move it later on. HKLM/Software/Wine/Dinput should be a good place for it.
Hmm, we're going to have to move all the registry keys? I thought we were just going to convert Software/Wine/Wine into a standard key rather than loaded at startup.
If we're going to start scattering the options around in the registry this has some implications for winecfg - currently all its settings are rooted at HKLM/Software/Wine/Wine