If I set the _USTN_WORKSETDGNWSTEMPLATE variable in a workspace config file, the msconfig.cfg is being looked at again (Specifically on line 471) and overwriting what I set at the workspace level. In doing so there is no way I can see to point to an alternative DGNWS file name for different workspaces.
I set it at the organization level and then lock it. I've tested it at the workspace level (still locking it) and that also worked.
Answer Verified By: Ryan Mann
Thanks Kevin that's what I needed.