I still have this or a similar issue with today's Karmic. If I choose
'shutdown' from the session menu, I am logged out, but the computer does
not shut down.

In the daemon.log, I get the following message:
Oct 27 23:26:02 purple gnome-session[1849]: WARNING: Unable to stop system: Not 
privileged for action: org.freedesktop.consolekit.system.stop no

So it seems to be an issue with permissions inside gnome. Not sure where
to change the setting, though. Any ideas?

consolekit version: 0.3.1-0ubuntu2
gnome-session: 2.28.0-0ubuntu5

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shutdown menu immediately logs out
https://bugs.launchpad.net/bugs/399531
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