Has an AFL game ever ended 45-39?
Yes. AFL has seen a final score of 45-39 2 times. It first happened on September 26, 1914, when Carlton beat Sydney, and most recently on July 4, 1942, when St Kilda beat Essendon.
That makes 45-39 the 2421st most common final score out of 6,607 that have ever occurred in AFL. One point away, 46-39 has happened 1 times and 45-40 has happened never. At one point the score disappeared for 28 years, between 1914 and 1942.