System Administrator Automatic Backup-Files Open

So I am trying to switch over to using System Administrator to do the backups (we just started using SQL Replicator) and the first back up failed because someone left Sage open at their desktop and I got an error about Master.qlm being open.  This will be an ongoing issue so was wondering what others are doing beyond user education?  I hesitate to script out any type of auto kick out function as I am afraid that will lead to bad data down the road.

Thanks.