I also had this problem repeatingly with different versions of Kubuntu.
As it turns out, the reason for this, is not the fan, but rather a
problem with the intel graphics driver which is not loaded correctly. On
Kubuntu I always notice it when there is a problem to activate "Desktop
Effects". Currently I am running Oneric and with Oneric adding
"blacklist intel_ips" to the /etc/modprobe.d/blacklist.conf did the
trick. Unfortunately I do not remember where I exactly found this trick.
But it helps. Instead of having a basic 80-90 °C and sometimes more when
the overheating appeared my CPU now has between 50-60°C, sometimes more,
but overheating has not been a problem since then on my Thinkpad X201. I
guess it will be again with the next Precise release, because new
release of (K)Ubuntu always break a lot and need months until they are
stable again. But for now everything is fine. I have to add that I am
also running the Xorg-edgers ppa https://launchpad.net/~xorg-
edgers/+archive/ppa and a fresh kernel from there. But this alone did
not help. Since I have lost the source of my information, I do not know
if I forgot something, but I believe that is all.

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https://bugs.launchpad.net/bugs/751689

Title:
  ThinkPads overheat due to slow fans when on 'auto'

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