Same for me:
firefox 3.5 and thunderbird 2.0.0 show the same problem.
[Kubuntu (Jaunty+some updates to Karmic) on two different machines]
The size of the vertical offset is roughly the height of the window header 
(menu+toolbar) so there might be a connection.
The problem has annoyed me for several months now. I have tried various 
combinations of versions of the libraries that the programs use without any 
success.

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Incorrect cursor positioning in Firefox.
https://bugs.launchpad.net/bugs/413950
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