I have lost count of the number of times it has been stated that the ECU will ignore the O2 sensor during acceleration - it ONLY works on CRUISE!. So, the installation of a new O2 sensor should be coincidental to the problems experienced. Rarely does the O2 sensor play any part in idle as well. However, it might be set to operate from too low revs - try raising the lower threshold to say 2000rpm. (in my Wolf ECU, closed loop, ie "use O2 sensor", is set to operate between 1500 and 4500 rpm, and below 45% load (50% is where boost starts))
The new dump possibly improves the efficiency of the whole system, to a point where the ECU is unable to cope with the changes. In such a case, it would not be inadvisable to do a bit of fine tuning of the ECU.
The stalling coming back from WOT could be a due to not having "shut down injectors on overrun" working correctly. It could be due to turning the injectors back on after overrun too late.
Your intake pipe is hot because it is sitting in a hotbox (ie engine bay), and close to a hot engine and hot radiator.