Actually, there is no difference in the gearboxes. I would wager the gearbox failure Chris saw was a result of the bad motors that were shipped in the first batch.
They tended to go up in smoke, and when you have 2 separate power trucks in the same loco running at radically different speeds, gearbox damage usually results.
So don't worry about the gearboxes, but do worry about the motors, if you are buying a used one, you need to check the current draw of the motors first if possible.
Here's in depth analysis of the problem, and resolution:
Aristo GP40 Problems - Smoking Motors & Debilitated Wheels
Greg