Whoever wired everything up had 12V power from battery, then a white wire that is spliced into a red/black wire going into the ecu, into the relay. The ground on the relay is good, then its a red wire going to the compressor to supply power, and it has a seperate ground.

So the compressor wasnt working, so I hooked up the white wire directly to the red wire going into the compressor to jump the relay pretty much. The car started and the compressor ran for a couple minutes until the compressor shut off, and at the same time, the car stopped running.

Now we have tried replacing some of the relays, had an extra fuel pump relay, and this has made no difference.
When we try and start the car, it will crank but not turn over. The fuel pump is not priming.
We can manually prime the fuel pump by giving it direct power and you can smell the gas.
Tested for spark by removing one of the coil packs and didnt seem like it was sparking at all.

Im thinking that it is either a main relay problem, or an ignition relay. Only problem is that everything is in japanese and I have no idea where any of these relays actually are!!!

Wow, this sounds like a wiring nightmare. I would try to remove any wiring that is already in place and see about running your own new wires. Just to see what this does. Try that or see if anyone else on here has any ideas.

Step 2: Isolate and Repair the starting problem (sounds like it may be fixed by step 1, the compressor seems to be part of the proble so isolate the system)

Step 3: Wire the Air system on its own circuit running fused lines off directly off the battery so as not to disturb the cars sensitive electronics.