I shouldn't have ignored the pooling liquids underneath the header.
Be prepared for a long post.
I'll start with the good news though.
After cleaning the fuel pump up some, I realized that dark spot in the shadow was not a fuel channel port. I was super confused on why a channel would be there so that cleared a lot of things up. Once I got past that misconception, I realized that this puck was not a filter and to move within its housing up and down with the pressure created by the diaphragm.
After carefully poking at it with a knife, The 30 year old gas glue released it.
A little shine and all was right with the pump.
Since I've been putting gas in the air intake and running the bike without it exploding, I assumed everything was more or less good with the engine and carburetors. I attached the fuel pump to the motor without putting on the fuel outlet to the carbs so I could see if the pump was working. Ran it and the pump squirted fuel for about three seconds! I only filled the inlet hose up half way so maybe the pump needs to be primed?
So I sucked on the fuel outlet, plugged it into the carbs and tightened the hose up. I saw some gas on the engine so wiped it up and turned over the motorcycle again.
Once - nothing.
Twice - a little more.
Three times it sounded promising but then WHOOOOOSH!!!!
A flame leapt up and I scrambled moving the gas can tank and using a wet towel to put out the fire (To deprive the fire of oxygen) since there wasn't a fire extinguisher handy.
I thankfully got the fire out without damaging anything in or on the garage. The motorcycle withstood it decently well too I think. That doesn't mean nothing went amiss though.
What I think happened was a leak sprouted under the #3 carburetor once the fuel pump started sending fuel to it. This fuel leaked on top of the motor and then down the sides to where the exhaust headers were spewing flames. Flame went up and subsequently burned three plastic pieces on the #3 carb assembly that I'm betting are going to be nigh impossible to find. I'll have some pictures of the damage tomorrow.
Lessons learned - Check for leaks before running, put on the exhaust pipes, and have a fire extinguisher handy.