Q: Im having a no start with a p0335

i got this car because the timing chain blew. I had a spare car that ran and drove, but a tree fell on it. so i used the engine from the spare for the new one i bought. the anti thief system locked me out and i was un able to re program the password. so i swapped out the pcm and the anti thief box that's under the passenger side dash. boom the anti thief light was responding. so I re program the ignition since the new pcm wouldnt except it. the car started up ran great for about 2 minutes then stalled. i checked the check engine since i have a cheapo reader and po335 and po341. I tested them and they tested good i ended up replacing them both actually ive tested ohms on each wire loop also which was good . i have new plugs and wires coil packs are good fuel injectors are firing fuel pump pressure is in spec also im lost now i know the engine i put in it runs i started it before i pulled it

My car has 215000 miles.
My car has an automatic transmission.