Problem has been solved.
The install/upgrade of mysql-common package failed because the file:
/var/lib/dpkg/info/mysql-common.preinst
had been corrupted (non-accessable even for root) due to a disk-controller 
problem and apt-get obviously tried to overwrite it while unpacking the .deb 
file.
running fsck -f /dev/sdbX in recovery mode fixed the corrupt file.

Please close this bug.

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mysql-common_5.0.45-1ubuntu3_all.deb fails to upgrade
https://bugs.launchpad.net/bugs/159976
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