The only issue you are likely to face is the CAL assignments not aligning, which means you may have to clear all assignments and redo them or use the Allow Dynamic Assignment option, as we use domain\user on those. The only other place I see an issue would be the Server Objects the users may have created, those are usually also stored under domain\user, so you may need to change the owners on those, or they would have to recreate things post migration...
Have a look at the following Help link, that should get you on the right track with things:
https://help.qlik.com/en-US/qlikview/April2019/Subsystems/Server/Content/QV_Server/QlikView-Server/Q...
Regards,
Brett
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