Quake3 problem

Hey guys, i have a slight problem with Quake3 in linux

My mouse doesnt seem to work, it is just stuck up there in the top left ... wont move no matter what. But when i connect to a server, the right mouse button works. So how would i go about getting the motion and left mouse button to work.

Another thing, it doesnt seem to save my config ... everytime i open it, its back at the default. Wtf?