I incurred into the same problem while working with Kile.
I modified Martin Weis script to process all the eps files in the
directory and to add the suffix -eps-converted-to.pdf by default in
generated pdfs , as Kile with the QuickBuild will be looking for those
ones. Also it automatically
Almost the same problem on my 32 bit Intrepid with Xfce and Compiz enabled:
Sauerbraten resolution is the right one, but I can't move the mouse (which has
a strange halo) except when I switch app back and forth, then I can move it for
2 secs til it stops so I have to do the switching again.