Car starting problems! :/

[Bawss5.0]

Hey guys, I just finished my engine swap at the end of December. All the work was done by my dad and I. We switched out my original stock block with stock heads etc. All I had was the GT40 Intake, CAI, etc, with a mail in tune from BAMA. Well my new engine is a 306, Edelbrock performers, e-cam, 24lb injs, etc. Just wanted to bump my engine up a notch since I was doing a swap. Anyways, this car is an 1994 Mustang GT AODE. AODE FOR NOW. I'm doing a T5 swap in the near future. SO as the title says.. I'm issues here and there starting the car. It'll crank up for just a burp and then will act like a carbuerated engine like it's "flooded" and will be puffing but takes my foot on the throttle to get it to start up. Throttle wide open. I'm not sure what this is about. The tune I got back from BAMA has my stock MAF calibrated with the 24's and has my EGR/Air pump deleted as I did "DELETE" them from the engine bay. Fuel pressure is what it should be at stock, changed the fuel regulator, because before the diaphragm was ruptured and was sucking fuel in. NOW, I have no idea what is wrong.. We checked my timing and it's where it should be. I cleaned the MAF as well. Other than one of my NEW O2 sensors barely reading right now, I don't know where else to look. Anyone have any ideas!? It does this on occasion..Other times it will start up and warm up like a normal cold blooded Ford.