Who can confirm that the NB input to the DDFI-3 ECM is 5V tolerant? The last thing you want to do is fry the microprocessor. If you can replace your NB sensors with WBO2 sensors and the ECM is 5V tolerant on the NB input pins, you're really in business. I would simply disable closed loop completely and tune the the open loop, high load, WOT regions with the WBO2 inputs. It's probably best done on the dyno, though.
I would suspect that the 1203cc Thunderstorm cylinder head isn't quite as efficient as the 1125cc Helicon head (partly in due to static compression ratio), so that would explain the lower "old school" AFR target that is closer to 13.0:1.
All this got me stoked again on tuning, so I've ordered a replacement sensor for my Powerdex WB!