$ export SDL_VIDEO_X11_DGAMOUSE=0For me, because I use a physical device for a disk and didn't want to give myself permission on the device:
$ sudo SDL_VIDEO_X11_DGAMOUSE=0 qemu-launcherMy mouse stopped working after I configured Xinerama and display rotation on X (I had alsoi upgraded to Ubuntu 9.04 but I didn't test my VM before fiddling with xorg.conf).