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If there is a Code W and an amount in box 12 the amount includes employer contributions. If this is incorrect you need to contact your employer and get a corrected W-2C.
Box 12 of the W-2 is for much more than just HSA contributions. Whatever that amount is for is indicated by the code in box 12. For what those codes mean, see https://ttlc.intuit.com/turbotax-support/en-us/help-article/taxation/letter-codes-box-12-w-2-mean/L6...
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