I also have the same bug:
to reproduce:
- system -> pref -> main menu -> activate the root terminal under App / system 
tools (don't know exactly my menu is french!) 
- try to launch it: nothing
the command is "gksu /usr/bin/x-terminal-emulator"

try in a normal terminal:
$ sudo /usr/bin/x-terminal-emulator
[sudo] password for xxx: 
Failed to contact the GConf daemon; exiting.
$
perhaps a better way is /usr/bin/x-terminal-emulator -e 'sudo -s'

-- 
Root terminal doesn't start
https://bugs.launchpad.net/bugs/326158
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