Yes, enter it in the HSA section. Usually when you make an HSA contribution through your employer, it is a pre-tax contribution that is listed in Box 12 with a code of W. Since in your case it is being listed in Box 14, it sounds like this is an after-tax contribution. If that's correct, you would be able to take a deduction on it.
But since this is not a normal treatment for an employer HSA contribution, I would double-check with your employer that this is correct. If it is a pre-tax contribution, they should re-issue you a W2 with a box 12 code of W with that amount.
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