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If the non-replicated tables show up in SSMS using native SQL Server backup and restore tools, then you would get the same results using SQL Backup.
Perhaps you could obtain the results you want using Red Gate's data synchronization tools i.e. SQL Compare and SQL Data Compare?
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I am trying to prove the process of initializing transactional replication from a backup/restore process and do not want the non-replicated tables showing up on my subscriber.
I have put all my replicated tables in specific filegroups, backed up by filegroups and restored only the filegroups of replicated tables, but the non-replicated tables also show up - the process I have been using is outside of the Red-Gate tool.
So, I need to know if after using Red-Gate for this purpose if the non-replicated tables would still showup on my subscriber. I currently do not have Red-Gate SQL Backup with which to test.