How exactly are you cloning the disks? If it was a byte for byte clone,
then the partitions on the cloned disk would have the same UUID as the
originals. Check the output of the blkid command. If they have the
same UUID, then connecting both at once will confuse the system. If you
change the UUID of the clone, then you will need to reinstall grub as it
will still be looking for the original UUID.
** Changed in: grub2 (Ubuntu)
Status: New => Incomplete
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https://bugs.launchpad.net/bugs/923070
Title:
Cloning GRUB2/GRUB-legacy makes clone not bootable
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