Trouble getting a dual monitor setup to work properly (color palette/flickering issues)

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http://unix.stackexchange.com – I have dual screen monitor setup. There are applications (like VLC), where everything works out of the box. If you fullscreen an application, you can use your other screen normally. This is the setup I would expect. Then there are mostly Linux games and Wine. If you run a fullscreen game, other screen just turns black, violet or flickers like crazy. Moreover, when you exit the game, the second screen is off, so I have to restart X. Does anyone know how I make this work better? Is this just a matter of those applications not using the appropriate library, or are there more fundamental issues (HowTos)