I have looked over the wiring diagrams many times, on your Trac your fuel pump is driven by the fuel pump driver module. The fuel pump ground is Red/Black, but the fuel pump driver module grounds it, through its own ground which is Black. The fuel pump driver module has 2 wires, a Light Blue/Orange, and a Dark Green/Yellow which go to the PCM through connector C110/C115, but they are both in the same connector socket so there should be no mismatch there on either side. The fuel pump driver module also has a White wire that goes to the fuel inertia cut off switch, and from the fuel inertia cut off switch there is a Orange/Light Green wire that goes to the fuel pump relay.
If it start and ran before the swap, but now doesn't, it still sounds kind of like a Pats issue. The Explorer Pats B cuts fuel to the engine to disable it, your original Trac's Pats E cut power to the starter to disable it.
If it's not that then possibly the fuel pump driver module is being disabled by the fuel inertia cut off switch. The 5.0 PCM controls the fuel pump relay which leads to the fuel inertia cut off switch which goes to you fuel pump driver module, that goes to your fuel pump.