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What distro are you using? You are using the nVdia config tool I assume. I have a similar setup (2 GPUs w/ 3 Mons), and disable TwinView, I enable Xinerama. If I remember correctly you have to disable twinview and select Separate Screens or X session, or something. It's been a few years now since I've changed those settings and not in front of the machine.
Ubuntu 9.1. Yes, nvidia-settings
Well that makes sense, but it sucks because a quick google search yields a lot of problems with COMPIZ and XINERAMA.
Compiz is what makes running a gui on linux worth it IMO
Ya, that sucks. I suppose I could reform myself and use two xscreens, although I need to check compiz on that.
I am going to be angry if I am limted to one xscreen with compiz.
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