The problem (at least in my case) is that "shutdown" needs root
privileges and  during the upgrade to natty (and btw everytime I upgrade
to a new Ubuntu version) the  privileges of shutdown are restored to the
default ones. Hence after every upgrade i have to run the following
command on a terminal

sudo chmod u+s /sbin/shutdown


I hope this help you Alex.

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https://bugs.launchpad.net/bugs/757367

Title:
  Gshutdown doesn't shutdown

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