Starting and idling problems

The fuel pressure dropping off when it's turned off is not the problem with it running rough. Mine drops to zero after sitting. Just cycle the key twice and it should start right up. Are getting any codes? I have found if it starts and idles ok and then quickly goes to hell, it is the tune or O2 sensor associated.

I was asking as I thought if the pressure was dropping off too quickly once the engine is turned off that perhaps there was a leak (either a leaking injector or a bad o-ring) allowing air in and throwing everything off. When the engine sorts itself out the fuel pressure appears to be steady according to the gauge (58psi). It has the full emissions pack so it has both front and rear 02's as well as the emissions canister and EVAP solenoid. I recall asking hotwireauto if I was to ever disconnect the emissions connections would it effect me running the engine and they said no.

I just re-checked the fuel injectors and there are no blocks and appear fine (not that I'd suspect it since they were flow tested and ultrasonic cleaned recently). I have also connected an Autel Autolink AL319 scan tool to the OBD2 connector but it hadn't flagged anything serious other than 2 codes but they were (unable to see instrument cluster and FAN1) which I'd expect as there's no factory dash or fan system. I cleared those codes but the Fan error returns each time.