Capt...
In your kit, you'll get some installation instructions that, if I recall correctly, also cover timing the bike at least to the point where it will start, so that you can set the timing with a light. I seem to recall a photo, either in the instructions or on Pete's website, as to the (rotational) placement of the assembly's backing plate so that the bike will start. Once you do that, you'll have to use a white Sharpie or the like to mark your timing marks on your rotor and stator, and use a light. You remind me that I should actually re-check mine, as I went on a wing and a prayer doing it initially.
TC