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Well, in the end I just moved the old Oracle VM Manager 3.1.1->3.2.1 failed installation to one side and installed a fresh 3.2.1 with a MySQL back end (so not reusing the OracleDB 'OVS' database either). I had to do some renaming of things from UUIDs to human-redable names again (required some trawling through "vm.cfg" for disk image and VM names) but otherwise it was just a case of gaining ownership of the VM Servers scanning physical disks and generally rediscovering things and stuff.
Annoying. But in the end at least I know my Manager installation is fresh and clean.
So it turns out you lose mappings between UUIDs and human-readable names for things like VM disk images, pool names, etc. But so long as you know what files to look for on the VM Servers themselves to see what's what it's not terribly hard.
Not that Oracle was any help in the end.
You should be able to use the info in the following doc to make a backup of that info in the event you upgrade again:
Oracle VM Manager 3.2.1 database Migration from Oracle RDBMS to or from MySQL (Doc ID 1522460.1)
I believe there was another note mentioned in 1351518.2 that provides more backup info.