The size can cause a change in spart output if it caused for a substantual change in coil winding... Primary to secondary coil winding ratio and the input voltage are what mainly dictate spark output... If size drastically changes this ratio, then it could have an effect.. a good example would be the CBR pencil coils that Im using.. Thier spark output is so week if used in an inductive system that you have to run them with CDI...
SIDE NOTE:
One thing that a lot of people dont seem to understand with coils and spark output (voltage) is that regardless of what the coil can produce, it only produces what is needed to jump the plug gap... If you go out and buy 50,000 volt coils, this does not mean that you are going to get 50,000 volts at the spark gap. Cylinder pressures have probably the largest effect on requiered voltage for spark jump at the gap... If it is only requiering lets say 24,000 volts to be able to jump the gap, then that is all you your gonna get from your 50,000 volt coil.. This mainly applies with inductive type setups... CDI setups will run at full voltage output all the time because of how it works compaired to inductive type systems. Its all in the system operating principles..