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This behavior is expected. The users and groups created and assigned UNIX POSIX information via SSS or Winbind have a different UID/GID numbering convention.
The passwd and group overrides (passwd.ovr, group.ovr) are premium features.
For identity consolidation, the commercial version will allow you to manipulate UNIX identity with ease using Windows GUI tools, PowerShell or *NIX-based scripting.
Note that we provide tools for migration. See this post by
R.P