Dear Bryce,
the problem still occurs in Lucid, but only for mouse scroll events.
This can be easily verified by opening xournal, enabling Options->Use
xinput and then, over its main window, press Win+mousewheel to use
compiz. If the scrollbar in xournal is visible (that is, if the document
/can/ actually scroll), it will scroll.
** Changed in: xserver-xorg-input-evdev (Ubuntu)
Status: Expired => Confirmed
** Changed in: xserver-xorg-input-evdev (Ubuntu)
Status: Confirmed => Incomplete
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xinput clients receive input even when the window manager is getting mouse input
https://bugs.launchpad.net/bugs/82110
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