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If you are paid less than the Government mileage rate of $.54/mile (in 2016) you can claim the difference as follows:
1. Deduct all of your business miles at the Government mileage rate, and
2. Reduce that deduction by any reimbursement that you receive (unless it is already reported as income on your W-2. At the end of the employee business expense interview (not at the end of the auto expense interview) one of the last questions is "Did any of your employers reimburse you for any of your expenses. At this point you would indicate that they did and, several screens after that, enter the reimbursements for other expenses (but only if they are not already included on your Form w-2 as income.)
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