Has an AFL game ever ended 49-40?
Exactly once. On August 26, 1922, Carlton beat St Kilda 49-40, and no AFL game before or since has ended that way. When it happened it was a scorigami, the first 49-40 in league history.
That makes 49-40 the 3836th most common final score out of 6,607 that have ever occurred in AFL. One point away, 50-40 has happened never and 49-41 has happened 3 times.