Latest update messes up colours in certain windowed applications.

Hello there, a couple of days ago (April 16th) I installed the latest updates available for my system. This included:
Safari 5.0.5
Security Update 2011-002 1.0
Canon Printer Software Update 2.5
The installation went as planned, but shortly thereafter I started noticing colours that weren't there usual vibrant selves. They were washed out, and tinged with brown. The first thing i check was my colour profile, it was as it should be. Upon further inspection I realized it was only affecting the colours in certain windowed apps. For example, in Adobe Bridge CS5, thumbnails of my work appeared washed out and brown, but if i view the full screen preview, the colours are as beautiful as they should be. Another example, websites appear washed out and brown in the browser (I've only tested in Chrome so far), but when I take a screen shot, then press the space bar to view the screenshot, the colours in the screen shot are vibrant as i expect them to be. However if I open the screenshot in preview, the colours are incorrect.
I also installed the same updates on my MacBook Pro, and haven't noticed any problems.
So what's going on here then?
Cheers.

Since changing my screen arrangement so my dock is on the main screen again, I've noticed that the icons in the app folder are all horribly oversaturated.
Please help me Apple, I like my colours to be correct. Microsoft always managed to get it right for a much lower price, so I'm sure you can manage too

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