Hello,
Thank you for posting in Q&A forum.
When you need to remove an old, superseded certificate from a Group Policy Object (GPO), you will indeed encounter a warning message stating that "Removing system root certificates may prevent some Windows features from functioning properly." This warning appears because the Windows operating system relies on a set of pre-established trusted root certificates to ensure the integrity and security of system components, updates, and services. Removing any of these certificates may cause the system to fail to properly verify signatures, thus affecting system stability and security.
However, in your case, since the new certificate has been successfully deployed and has overwritten the functionality of the old certificate, it is safe to proceed. But make sure you have backups and that the new certificate is in effect and working properly on all clients, just in case.
I hope the information above is helpful.
Best Regards,
Yanhong Liu
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