If you can find good enough spec sheets on the two motors, you'll probably find that they have slightly different torque curves and possibly different operational RPM because of the difference in motor current. They're both pretty low voltage as far as motors are concerned, so think about practical things like cable lengths, what will be supplying the motor power, and where that is located. There's going to be a big difference in current for a 90vdc verdus a 12vdc motor.