In my case the HPA fix with hdparm was done on one of the physical
drives of the array, like /dev/sda in your setup. However, I only had 2
drives in raid.

You can probably check the HPA settings on each of those drives and see
whether they are inconsistent or messed up by the Linux kernel. Beware
however, as changing them can easily break everything.

-- 
booting live cd breaks intel matrix raid
https://bugs.launchpad.net/bugs/383001
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