This is just a thought 247 but with the stator coil, is it still the same way around on the mounting plate as it arrived? My logic is that the cdi's usually pick up of the pulse running one way, (say North South) generating a + direction pulse (sine wave). If you have turned the plate around but are running the rotor in the supplied direction (South North) you may be generating a - pulse ( sine wave), then those little diode thingise will not allow the pulse to trigger.
Try turning the stator coil over on the mounting plate, if it will fit.
It may be worth a try and should cost nothing.
I like the handy work of your mounting system. I like blending old stuff with new and you look like you've done a great job.
Good luck
PB