So, I've been pretty critical here, so let me say this:
When I first got my commando, I had a very similar situation. I saw the previous owner ride my bike, so I knew that it ran. Once I got it, I just couldn't keep it running. I could get the occasional start, but it wouldn't stay idling and it would die after a few throttle blips. I even got so desperate as to tie a rope around the headstock and have my friend pull me around with his car to try to jump start the bike.... I've never heard of anyone else doing such a stupid, dangerous thing, but I was young and stupid at the time. After finally having a near crash while doing that, I gave that up for good.
On the day that I finally found the problem and fixed it, I was working on the bike in the driveway, kicking away and getting the same intermittent result. The bike would start about 1 kick in 5, rev up in response to the throttle blip, but then die. Eventually after 2 days of kicking, testing, troubleshooting, and going in circles, my friend who was going into town to buy lunch, saw me struggling and said, "What plugs are those? I'll stop at the parts store and get you new plugs". I told him that I tested these plugs by spring clamping them to the head and kicking the bike over and they both sparked fine. He still insisted on getting me new plugs and I relented to his offer.
We ate lunch, then I switched out for the new plugs he got me and the bike started on the 2nd or 3rd kick. It started and stayed running. I was happy, but also confused because I actually tested the old plugs and they sparked fine when spring clamped to the engine fins, so I assume that meant they tested as good. Later, our mechanic friend explained that sometimes the plug insulator is cracked up inside the plug where you can't see it so it tests ok outside the engine, but under compression it sparks up inside, where the insulator is broken, so it doesn't light the charge inside the cylinder..... It tests good but is not good.
The lesson of this story is that although "test, don't guess" is the rule. things like a new set of plugs are exceptions because they are cheap and can test good and still be intermittently bad... So, if you haven't put new plugs in because the others tested good,.... it wouldn't hurt to have a second set of new plugs,... just in case.
I'm glad you are making progress and have the bike running now. If you suspected the boyer caused the original problem, and then suspected the Tri-spark as also being bad, that's not impossible, but seems like that it would be a longshot for both to be bad. However, since they are both electronic ignitions, they may both be more sensitive to voltage drop. Maybe test for your battery health and that your rotor/stator set up is charging properly..... low voltage is an issue with electronic ignitions... good luck...keep going
