Out of interest - which ones? I had a few problems with Warty (the
first Ubuntu release) and KDE with some KControl modules not working at
all, but it was largely fixed in Hoary and totally fixed in Breezy.
Under Dapper, the memories of modules not working due to the lack of a
"real" root account are just a fuzzy memory

Everything I've used in
both Gnome and KDE just works without a real root account - they have
done a great job of substituting the sudo model into the GUI.
Not trolling - genuinely curious. Ubuntu (especially Dapper) should
have everything working using the "rootless" sudo authentication.
On a side note, I've been a full-time Unix administrator and systems
programmer for over 10 years and since using Ubuntu with no root
account, it hasn't bothered me. In fact, I like the idea of no root
account for desktop/small-server purposes.
Cheers,
James