I believe this is an issue with Finale and a few other cross-platform applications. There was a post about this in the Keyboard Maestro forums....

I don't think the amount of RAM is related to this issue. I'm running with 16GB - more than enough and the problem only appears with Quicktime Instruments. Since the SmartMusic Softsynth will only...

I also have this problem when I tell MIDI to playback to Quicktime Playback. If I switch to SmartMusic Softsynth the problem goes away. (Finale 2013c.r13 for Mac)

Consider this one more vote for further development! I find it mildly useful in its current state. However, I am more often disappointed by its limitations.

From what I have found, it seems that the only way to invoke the "Transpose" menu item (transpose without changing the key signature) is mass edit select measures X-Y menu item "mass edit/transpose" ...