The 500W and below Cyclones have the controller built into the motor body. Above that and you get the external controller.
Ypedal may be able to post some pics of the internals of his 500W motor ? I am also very curious to see how it is set up.
On the ES thread, I have posted a pic of the internals for my motor and It looks to be essentially the same concept as a hub motor, nice and simple.
Without seeing the <500W internals I would suggest you would be hard pressed to mod the controllers to handle increased amps or volts. Increased Amps is going to increase the motor's heat output, and it is only a physically small motor.
Increased volts will give you a higher chain speed, but you will probably be hard pressed to keep up with the chain when you pedal, assuming you plan to pedal assist ?
With the double freewheel I suspect it will be possible to fit two different sized freewheels, say a 14/18 combination. Pedals turn slower WRT motor RPM. This could be an option to make use of increased amps if you can figure out a way to mod the internal controller, though you have the heat dissapation issue. Not sure what sort of life you can expect out of your drive train either..
For the forseeable future I just want to get my trike running and reliable. I already have the wattage and gearing to pull 60 kph on the flats, and with piddly drum brakes even that takes a while to slow down from, so I am not that interested in over volting. I may have a look at increasing the amps to help me up the hills and help me carry a higher gear to keep the motor in it's efficent rpm range.
Overall, the Cyclone is a comparatively complex setup with unique characteristics, and in some respects difficult to modify. There also seems to be very few enthusiasts playing with them since hub motors are so easy to setup and have a well known mod potential. But there are a handfull of people on the forums playing with them, so hopefully as we start to tinker, some more info will become available.