Another problem I had using the nvidia driver are redraw errors 
(repeated lines of junk below the cursor which disappeared by 
minimizing-maximizing the window). But for this a solution is to add

Section "Extensions"
         Option "Composite" "disable"
EndSection

to xorg.conf as it is described at


http://forums.wolfram.com/mathgroup/archive/2006/Nov/msg00574.html

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Mathematica 5.2 display very slow
https://launchpad.net/bugs/68404

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