Guys, I have had same problems with all versions of Ubuntu (from 10.04
till 11.10). Used thinkfan to control and put in disengaged mode, the
only way to cool things.

Funny end of the story, turned out to be the a dirty cooling unit. All
thinkpads has quite good dissipating units, but they tend to be clogged
extremely easily. Moreover, some dust get into my fan and was vibrating,
so I disassembled entire dissipating block, cleaned tons of dust that
was stuck in the dissipator, properly lubricated entire fan unit with
some WD40 (circuit friendly), and the result is incredible. I live in
the tropics and sometimes I use my T400 without AC. When doing normal
activity, fan always throttle normally as it should do. If I use max
performance, it will go to the top admitted by auto (which is never same
as disengaged in thinkpads) and temperature will slowly increase and
stay steady at no more than 70C (GPU too) even if room temp is nearly
30C.

Thinkpad fan is purely controlled by the BIOS. You can install all sort
of utilities to manually control the speed, but nothing beats BIOS
settings, that are working properly with a clean unit.

If anybody has the problem with a perfectly clean unit, then please
report it here.

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

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

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