File the state return by mail with the payment. They may be satisfied with that and if not they may ask you to amend, but the tax payment will be made with little to no late payment fee.
File the federal by e-file and don't be concerned about the state in this process. It's likely to reject since one may have already been accepted. If it does go through then you can still send the paper file with the payment and mark it duplicate.
@CRS1985
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