Since Aldon does not specify the operation of their "Ignitor" ignition system other than claiming it will work from with a power supply of 6V. to 16V. DC, one can't be absolutely sure of what it's actually doing. However, similar systems that replace breaker points with a magnetic trigger usually are set so that the magnetic trigger interrupts the coil current for a fixed amount of time for every ignition event. That means that the current is interrupted for a fixed period of 8 to 10 milliseconds per spark event. At low speeds, the coil will draw almost as much current as if it were simply connected directly to a battery and the average current will gradually decrease as RPM increases. This means that the "effective dwell time" is increased at low engine speeds, unlike a mechanical point system. This does allow for more average current through the coil and more "coil saturation", but also increases the power being dissipated in the coil and the heat load. For this kind of a system, having the coil in a cool location is critical.
Measuring the "engine stopped" current and then the "engine running" current and communicating those numbers back to Aldon, should give them the info to know if the trigger pulse length is correct for your device. Changing the primary polarity will not reduce the heat load, but will give a correctly polarized spark which will work better with worn plugs.