Ok I think I fixed it!!
First thing I did was spray quick start into the air box, fired right up. Let it idle for 1-15mins, idled normal. Took it for a ride and the same thing started happening, the bike lost power and was running on 2-3 cylinders. Died once I came to a stop and did not restart.
Took the bike apart and checked the vacuum line, it was working fine. I removed the fuel line with fuel filter that connected to the carbs and ran it to a jerry can. I left the vacuum line connected and started the bike, no fuel coming out. I turned off the bike and switched the petcock to prime, still no gas. So I removed the fuel filter and started it up again, this time a smooth flow of gas came out. Turned off the bike and switched the petcock to prime and fuel came out.
Put everything back together without the fuel filter and the bike runs better than ever. I guess there is not enough vaccum pressure to pull gas through the fuel filter. When I put my finger over the vacuum line it has very light suction.
Side note: I tested the resistance on the 88' GSXR 750 coils and they are 3.5ohms, so they work fine on out bandits. They are bigger coils and mount with only one grounding point.
I hope I can ride trouble free for the rest of the season.