If you're looking at the physical box at your LHS, Athearn has made it easy for you. The old Yellow, Blue and Red Genesis boxes are the old runs with MRCs and Buhler motors. The dark blue Genesis boxes are the new runs with Tsunamis and Roco motors.
However, Athearn did use the Yellow, Blue and Red boxes for some Tsunami equipped models since they still had a bunch of the boxes on hand and didn't want to waste them. The MP15ACs are an example. THE MP15ACS also have Mashima motors.
If you ONLY buy the dark blue box Genesis, you are guaranteed a new run locomotive, and if it has sound, you are guaranteed a Tsunami. Obviously, you can't see the boxes online so this only works if you can see the actual item.