Me too.  Ubuntu 8.10, Nvidia 177, Xinerama.  Like JP, I prefer to have
one of my displays rotated CW 90 degrees.

I switched to Twinview yesterday and haven't seen the problem since
switching.  Before that I was having to restart my X server every 1-2
hours because of this bug.

I can reliably trigger the problem by using x11vnc or vino to share my
Xinerama desktop with another computer.  After exiting the vnc viewer on
the other computer, the mouse would move but no clicks would register.
The workaround is to put the mouse cursor at the farthest right edge of
the virtual desktop before exiting the vnc client.  If you do this, you
can usually avoid triggering the bug.

There's a possibly-relevant bug which I thought was due to vnc but is
actually probably due to this Xinerama bug: when operating my Xinerama
desktop remotely using a vnc client, I could not click anywhere on my
first display (the rotated one).  Only clicks in the second screen would
register.  I could move the mouse cursor to the first screen, but I
could not interact with anything on that display.

-- 
X.org will stop responding to mouse clicks on Ibex with Xinerama.  Occurs 
frequently, Fatal Error.
https://bugs.launchpad.net/bugs/296167
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