This problem happens when using compiz's “Rotate Cube”.
Right after switching work spaces using the cube effect, the windows
displayed in the previous workstation you are moving from are shown for a
fraction of a second in the new workstation you moving to. Kind like a
flicker or a flash.
This is the workaround I have found so far:
https://bugs.launchpad.net/ubuntu/+source/compiz/+bug/862430/comments/149
This workaround suggest to downgrade compiz to version 0.9.7.8 which I'm sure
is not the ideal, and it may cause some problems. So far, I haven't got any.
If you use this work around and you are having problems please post back.
This problem is fixed on Ubuntu 12.10, so it should also be fixed on
Trisquel's next release too.
Please share if you know how to fix it in a better way.