Sorry for the bump but maybe something to keep in mind with this issue.
Some reading up on the internet has gotten me on a different track about
the loss of the RAID Arrays in my old setup:

It seems starting with kernels newer then 2.6.24 there might be a change
in the timers mdadm uses to declare a disk dead or alive. This is
possible related to ERC/CCTL/TLER settings: The time a drive is allowed
to use to recover from a read error (e.g. bad sector). Normal consumer
disks have these ERC/CCTL/TLER setting disabled by default (or don't
have it at all) causing them to take up to a minute to respond again to
the OS.

With ERC/CCTL/TLER enabled, a disk will respond to the OS/RAID driver
again after a specified amount of time (e.g. 7 seconds). The RAID driver
then sees the drive is still alive and corrects the data using the data
on other drives.

Could it be that mdadm's disk timers have been changed causing newer
kernels to drop groups of disks from the array?

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https://bugs.launchpad.net/bugs/613872

Title:
  md raid5 set inaccessible after some time.

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