"Natty uses a newer version of compiz (.9 something) that isn't affected
by this"
Hmmm, I know that already. It isn't affected because it has the same
patch we just deployed to Lucid and Maverick. However, this has started
happening again in Natty, so I'm not sure you can say it's unrelated to
this one.

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https://bugs.launchpad.net/bugs/438868

Title:
  Numerous applications have focus issues after emerging from a
  screensaver or suspend

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