I think this is related to update manager settings,
solution is here:
http://ubuntuforums.org/showthread.php?t=1593135

I have same problem, apt-get is started daily by cron job, and it dose not stop 
running 
until killed. So I try to run same command as cron was, excluding "-qq" 
(quite no any info printed to stdout from apt-get in case -qq argument)

So I typed following:

      sudo apt-get -y update

After updating from online repositories,
it stop, and it was asking for Mavercik CD to be mounted.
It would wait for ever, and cause cron job runs it with -qq option
it probably ends in kind of infinite loop using 100% one of CPU cores.
Above posted link solve the problem.

This could be reported as bug for apt-get when using quiet option,
have no idea what could be good solution and better alert for dead lock
situations like this then high CPU usage :-).

I installed by upgrading Lucid Lynx using ubuntu-10.10-alternate-amd64.iso
Most probably there is cause for incorrect update manager settings.

-- 
apt-get automatically starts and uses 100% CPU forever after each boot
https://bugs.launchpad.net/bugs/665580
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