Sorry I didn't mean the stock MAP reads boost, I meant mine only gets used for mapping when engine under vacuum. By the time any boost is fed it was onto % throttle map.
The new autotune kits apparently retain the stock o2 sensor, is this the case with yours, or did you stick the autotune o2 sensor into the pipe in place of the stock one?
Assuming if you did you have a stock wiring harness o2 sensor plug blanking plug, or unlocked the box in TuneECU?
Sounds like something up with your ignition module, if you remove that does everything work ok?
(Without going into area of map where timing has to be retarded of course)
Also not sure about the way the stock MAP is still there and the Bosch 3 bar MAP is also wired in, I haven't done the 2 or 3 bar MAP thing myself so cannot help.