Your employer made a mistake. Employee bonuses are supposed to be reported on your W-2, not on a 1099-MISC. So I would enter your 1099-MISC as follows:
Less Common Income > Miscellaneous Income > Other Income not already reported on a W-2 or 1099-MISC > "Yes" to Did you receive any other wages? > continue past the household employee and sick pay screens > "Yes" again to Did you earn any other wages > then check "Employee compensation that was not reported on a W-2" > and proceed on. Carefully follow the directions on each screen that follows.
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**Answers are correct to the best of my ability but do not constitute tax or legal advice.
