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0e1f616
(Get the code!)
@exactt: Yes, it could have been that. Interesting article.
On another note, after reading bug #188226, I tried the same test using the 2.6.24-17-server kernel and the desktop just flew! No pauses, no windows greying out, and FF3 was responsive all the way through. It's a pity that the server kernel doesn't configure the sound card etc, otherwise I'd just use it instead of the generic one.
And just to be sure there weren't any other changes that had improved things, I retried the test under 2.6.24-17-generic and FF3 still greyed out during the copy.