Unless I've omitted something, the transition from the Phantom I to the Phantom II is as follows:
new bearing cap
new magnet
titanium wand
micropoise
Each of these upgrades, with the exception of the latest - the micropoise, can be done just by purchasing the new part from Bob. With those upgrades, I don't think one can distinguish between an upgraded II and a new factory II, other than to insist there is a mystical difference.