Has a College Football game ever ended 59-40?
Exactly once. On December 25, 2004, Hawai'i beat UAB 59-40, and no College Football game before or since has ended that way. When it happened it was a scorigami, the first 59-40 in league history.
That makes 59-40 the 1820th most common final score out of 2,216 that have ever occurred in College Football. One point away, 60-40 has happened 2 times and 59-41 has happened 6 times.