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Deductions & credits
The general design tendency in TurboTax is to enter things on the federal return and to let them flow to the states. This is true of medical expenses that would go on Schedule A of the federal return.
Note that TurboTax automatically carries HSA distributions to Schedule A as a type of reimbursement. Therefore, to keep things equal, you need to make a one-line entry at the end of the medical expenses section on Schedule A (Federal->Deductions & Credits->Medical->Medical Expenses) that's says "Medical expense reimbursed by the HSA" along with the amount of the HSA distributions.
Medical expenses are sometimes deductible in Alabama, even if you take the Standard Deduction on the federal return.
You should enter medical expenses on the federal return (Federal->Deductions & Credits->Medical) even if you won't get a deduction on the federal return, because they will carry down to Alabama and, if deductible, will reduce your Alabama tax due or increase your Alabama refund. This is why we are doing the HSA distribution and expenses this way.
Also, if you enter the medical expenses are entered this way (on the federal return), then the correct limits in Alabama are applied. If you entered the medical expenses on the state return as a deduction on the "Let's Check for any Alabama Deductions" screen (at the bottom under the subheading "Other Deductions"), you would be responsible for calculating the correct amount that can be deducted.