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Yes the freewheel diode will see the full current going through the motor when the mosfets are off, so I would make sure it can carry the same current that the mosfet can do. For the capacitor, it's a little hard to know. Make sure your capacitors are rated for 105degC. It has worked in the past with me using like 10% of the current rating of the controller for the ripple rating on the electrolytic caps. The worst case is 50% I guess, though. So, ideally with a 500amp controller you would have 250amp of ripple current rating of capacitors. But in practice that really seems unnecessary.
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