Yes you can e-file. When the software asks how you want to pay your tax owed, just say you will mail a check. TurboTax never knows how, when or even if you paid your tax due. The IRS does not provide any updates to TT regarding your payments. Your TurboTax account will always show the result of the return you prepared using the software, so it will always show you have tax due. That will not change on the TT site.
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