Hi @ Bob Pants
You mentioned you have an old Exchange 2013 server, did you have any other on-premises Exchange server, such as Exchange 2019? Or do you want to upgrade Exchange 2013 to Exchange 2016 or 2019?
The other ones, there are multiple copies of, the Exchange Delegation one, the new cert has no roles.
I am not sure what is you meaning of it. Could you please describe more details to us?
Based on my research, the "Microsoft Exchange" certificate itself is an self-signed certificate. So you don’t need to convert it to back. When you install Exchange 2016 or Exchange 2019 on a server, two self-signed certificates are created and installed by Exchange. In this official document, it describes two self-signed certificates:
Digital certificates and encryption in Exchange Server | Microsoft Learn
the MS Exchange Server Auth one, I tried to delete the duplicate and it gives error about RPC in use by Transport service
This is also the self-signed certificate and still have the service running and we don't recommend you delete it. If this certificate has been expired, we suggest you renew it.
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