The example I remember is firestarter starting yelp as root when you
view the help menu, which is undesirable, but not a security problem
with gksu.  When you run an application with root privileges, you are
trusting it to operate securely with those privileges.  Running yelp as
root is a minor violation of that trust, but it's a firestarter bug, not
an insecurity in gksu - apps that run as root may also launch other apps
as root in the course of their normal operation.

-- 
Missing: gksu/sudo only help to identify the user in front of the computer and 
not possible rogue applications [dekstopguide - getting started]
https://launchpad.net/bugs/48836

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