Are these two different 1098-Ts for the same college? That would seem to be a mistake. One of them is likely to be a Corrected 1098-T. Use the one with the box Corrected checked. If neither of them says corrected, contact your school, because they shouldn't be issuing two 1198-Ts for one student.
If these are from two different schools, after you enter the first one, on the page Here's Your Education Summary choose Add New School. See the screenshot below.
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