It is likely that it is the IRS that is rejecting the return. The IRS sets the standard for the data format (in XML) that e-filers have to use. TurboTax creates an XML copy of your return and send it to the IRS server that handles e-filing.
If the IRS server rejects the return because of what it perceives is a duplicate entry, how exactly is that TurboTax's fault?
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