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I was having kind of the same problem. I didn't had an error dialog like you and for me, the issue appeared when I rotated 3d graphics. When I did this, after a second or two, the notebook window grayed out too, although when I released the mouse button, everything turned back to normal. This seems to be a common problem and has to do with the ...


You must adjust the Antialiasing Quality to solve that issue. Go to menu Edit -> Preferences -> Appearance -> Graphics.. then adjust it.. That worked for me. I have Ubuntu 14.04 and Mathematica V9. Other solution is open a terminal and run: mathematica -mesa when opening.

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