Run your finger along the top of the "dogbone" frame brace under the trans. The shift shaft seal, if it has a small leak, will allow some trans fluid to leak and blow back onto the brace and the left pipe, without actually dripping on the floor. I speak from experience. You mentioned resealing the entire primary side of the bike. What seals were replaced, and what brand of seals/gaskets did you use? Replacing the stock Harley shift shaft seal with another stock seal is a waste of time and money, go with the double lip seal from Cometic. I've heard that H-D recently changed to a double lip seal as well, but I can't confirm that. All I can confirm is that the original seal was a total POS.
Sure would be nice if this could be replaced without pulling the entire primary, but unfortunately it can't. So it makes sense to use the best possible seals next time so you don't have to keep taking it apart.
Jerry