You're probably already figured out your answer by now, but if not, here's my best understanding. I believe the Central Store being created is going to be ignored by your clients. Clients don't actually use the ADM or ADMX files at any time to process a policy. Your management machines should however be using the Central Store in order to gain the advantages of the Central Store.
Another way to say this is that I would not expect this to be a problem.


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