Both Jaguar and Victor have similar front ends on the PWM interface; they both use opto-isolators. The difference is likely in the resistor value used and resulting current drawn from the PWM signal source.
If you use a Jaguar for this application, you'll need to recalibrate it since the range of the PWM signal is wider on the Jaguar than a normal RC PWM signal, and if left uncalibrated you will not get full output at the full RC PWM range (1.0 .. 2.0 ms). The Jaguar range is optimized to work with the cRIO.
And if you move it from your project back to a cRIO run robot, don't forget to re-re-calibrate it
