71 cl100 hopefully 2-stroke soon

another idea...if you want to go two stroke with out a charging system you can always go constant loss electrical just to pass inspection. or look out for a two stroke trail bike which will have a lighting coil on the magneto. whatever the case, you are looking forward to a considerable time investment. if you love the work, it will be fun. if you don't like to problem solve and fab, you'll never get done. Dr. b. knows the deal and has made a few false starts over the years i'd guess. it's how you get better. just a few thoughts.
parks

so that you avoid interchangeability issues, it's usually easiest to use as much of the wiring as possible from the motor's doner bike, especially handlebar switchgear, and loose the wiring from the bike (frame) you're sticking the new motor into. brake light switches are easy to re-invent and usually neccessary to redo anyway do to the rearset/footpeg mod.s you're in for. mock up engine early on to check for chainline issues (swingarm travel along with right/left alignment as fatguy mentions... really hard to correct after you are too far down the line.
parks