On version upgrades the database schema could be adapted, so installing a fresh XIQ-SE and restoring an XMC backup shouldn’t be very lucky…
The upgrade XMC->XIQ-SE is quite straight forward, I already performed that and there were no issues.
Just take a snapshot with the XMC in power off mode, start it and upgrade it.
power it off, remove the snapshot and restart it.
I power the machine to get faster snapshot management.