File to the correct primary insurance. Medicare won't do it for you. If it's past timely filing, you NEED a refund request/recoupment EOB from Medicare to submit to the commercial plan, to start the timely filing deadline over.
If you're still within the commercial filing deadline, your best bet is to wait until you've received payment from the commercial payer, and refund the difference to Medicare. The commercial payer doesn't need to know whether or not you were overpaid by Medicare, or if you've fixed the problem - that's none of their business, unless you need to extend a filing deadline. Hope that helps!
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