Go back to the page where you entered the EIN on the Form 1099-MISC in TurboTax and be sure that the 'EIN' choice is selected instead of 'SSN' for the format of the number itself. The question reads, "How is your payer's Federal ID number formatted?"
If that does not correct the problem, please share the exact message you are seeing that is preventing the e-file of your return.
@MrTax
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