xrandr is the tool that you are lookin for:

xrandr --output <output> --gamma 1.0:1.0:1.0

output might be DVI-0 but you can check it with xrandr -q.

But I don't understand why 2nd monitor would mess the gamma settings
in first one. This would need some more investigation to find the
cause for problem.

-- 
adding second monitor changes colors/colours in first monitor
https://bugs.launchpad.net/bugs/522167
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which is subscribed to xserver-xorg-video-ati in ubuntu.

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