I have AmiQuake in the same folder as regular Quake. Everything seems to work moreorless fine and AmiQuake is certainly faster than Quake.
There is one anonying niggle however. Freelook on vanilla Quake works perfectly - when moving forward or backwards or strafing with "w s a d" keys the view does not automatically recentre. So you can walk forwards happily whilst looking stright up if you wish. The problem is with AmiQuake (which I assume uses the same config file, it certainly seems to) - as soon as you walk forwards or backwards the view snaps back to straight ahead.
Does anyone know how to get AmiQuake working exactly like regular Quake in this regard?