Why is Active Directory discovery creating records based on the Domain NetBIOS name instead of the Common Name?

You run a computer that is a member of a domain (such as Domain A). The first common name (CN) of the domain fully qualified domain name (FQDN) is different from the domain NetBIOS name.

The computer is a member of a group in a different domain (such as Domain B).

ConfigMgr 2012 R2 Active Directory discovery is run in Domain B.

In this case, the computer that is a member of Domain A is a foreign security principal.

In this scenario, the computer that is a member of Domain A and all other computers in Domain A are discovered incorrectly as using the NetBIOS name of the first CN of the FQDN of Domain A.

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