kdesudo with -u option calls sudo -u instead.
What is the result of a sudo -u skype skype ? 
If that doesn't work, it's either a bug in sudo or a problem in your sudo 
installation.
If it does work, then it is a kdesudo specific bug, which I doubt, as kdesudo 
only wraps commands to sudo in the first place.
The reason it did work before is that kdesu (original) didn't really use sudo, 
which was good in your case, bug caused LOTS of other problems...

kdesu isn't in the repos, as it is part of kdelibs.

Kdesudo package diverts kdesu to kdesudo, so simply uninstalling the
kdesudo package will bring you back to the original kdesu. That can be a
workarround in your case.

-- 
Starting applications as a different non-root user (kdesu -u) does not work 
after upgrade to Gutsy
https://bugs.launchpad.net/bugs/140793
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Bugs, which is the bug contact for Ubuntu.

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