Dang man you are getting down to the nitty gritty. I'm not sure about the trigger pulse. I believe it was just an ohm reading to insure it was not grounded or open. The three Yellow wires (those are from the mag I) need to be around. .5 ohms. If I remember correctly the trigger coil is around 240-260ohms..
This is what happened with my 1996 GTX. It wouldn't start so I rebuild the carbs which were very bad. It started up great in the shop right away then another time or two. Then it wouldn't start at all. No Fire, then it would start up and run great on the trailer. Then wouldn't start. I never took it to the water. Fought it for weeks and studied. I ended up paying that question answering service about $20. They guy helped me narrow it down. This was my first electric issue with any ski. I was learning.
What I've learned since then, VIA Matt Braley
is to buy that little tool that separates the pins from the connector and check the pins. That 96 I repaired would not start up right away after connecting the battery. It had to sit for 20 minutes then it would start. I didn't quite figure this out until I separated the connector pins on the DESS. When I stuck the tool in there.... I encountered "crusty dirt" After I cleaned that plug I never had the problem again.
I had another "no-fire" issue on a GTX. I was not getting voltage to the coil. I replaced the MPEM with a spare and the ski started right up. Good Luck !! Let us know what you find.
This is what happened with my 1996 GTX. It wouldn't start so I rebuild the carbs which were very bad. It started up great in the shop right away then another time or two. Then it wouldn't start at all. No Fire, then it would start up and run great on the trailer. Then wouldn't start. I never took it to the water. Fought it for weeks and studied. I ended up paying that question answering service about $20. They guy helped me narrow it down. This was my first electric issue with any ski. I was learning.

What I've learned since then, VIA Matt Braley

I had another "no-fire" issue on a GTX. I was not getting voltage to the coil. I replaced the MPEM with a spare and the ski started right up. Good Luck !! Let us know what you find.