I have a similar problem with 10.04 LTS and KDE. 
First login after boot: 
Sometimes only the menus of certain applications can be clicked, but window 
move or resize with the mouse is not possible. I think  only the left mouse 
button is affected. I tried to stop most of the kde processes, but this did not 
help. kwin --replace helps only for a few mouse clicks and then the problem 
occurs again.
If I logout and login again, the problem is vanished.
I'm using the nvidia-current driver and have a logitech wireless mouse.

-- 
Mouse events fail frequently and unpredictably, requiring kwin restart
https://bugs.launchpad.net/bugs/505494
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which is subscribed to xserver-xorg-input-evdev in ubuntu.

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