I really do think that the problem is with the AHCI driver in Ubuntu.  I
presume that using "compatibility" mode, drops one back to IDE driver
mode and I see (ps -=ef) that ata_sff and ata_aux are loaded and
running.  I see mention of ata_piix in dmesg but not as a loaded process
after the machine boots.  I have seen other threads where people say
that using ata_piix kills disk performance.  I don't know enough about
disk drivers on Ubuntu to really say much... but overall... the problem
on the NB305 sure seems to be how the AHCI driver and the timer
interact.  Turning off AHCI brings the system back to normal ...
although I have not tested disk performance (or how it affects CPU load)
extensively.

-- 
Disk driver problems on Toshiba NB305Netbook
https://bugs.launchpad.net/bugs/601986
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