The main reason capacitors are used on DC motors is to cut down radio interference/noise. It's a good idea to fit at least two capacitors on your motor; generally from the positive motor terminal to the motor can and then one from the negative motor terminal to the motor can. The can will act as a ground. For extra security measures you can wire a third capacitor from positive terminal to negative terminal, but it's not needed.
Rummaging through my stock Xmods motors (for EVO) I see a capacitor is between the positive and negative terminals, but the positive end is extending on towards the can connecting all three (can, positive terminal and negative terminal). Then there is also a capacitor on the negative terminal connecting to the can.
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