I've ran several backup/restore tests and the same thing had occurred. What I had to wind up doing is make a backup with the store (it has its own backup/restore data component), restore the Akeeba Backup, restore the store files separately, and then the data will return.
Is this to be the norm for store sites that use Mijoshop? i know VM doesn't have any issues because VM is a Joomla cart component in contrast to Mijoshop that is more of an independent component.
Thank you.