I've installed 2.6.33 from the mainline ppa
https://wiki.ubuntu.com/KernelMainlineBuilds so I can have a play with
ATI KMS but it seems to have solved these (and my other) issues with
PATA drives on VIA chipsets. Be aware though that the latest kernel
won't won't with the current fglrx binary driver.

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LIBATA with  PATA_VIA causes ATAPI  PATA devices to hang with HPET enabled
https://bugs.launchpad.net/bugs/282536
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