OK, missed some of the context - maybe rtf post properly would help - hey it's early...
You say you can't mount directly to the plenum - OK but as close as you possibly can is the real answer.
I can't see an issue with the flap position actually as the injector circuit is switched off when on GAS and so there is no "air / fuel" metering required.
The issue is backfire. RPi state that they pin the flap back and run cintinually on gas. When they occasionally need to run on petrol then the flap is unpinned and allowed to operate normally.
OK so there is a restriction in the diameter of the inlet pipe, but the VOLUME of air (remember flapper not hotwire) is still metered and on acceleration the vacuum will just pull more air through. Heck you have a K&N - plenty of volume gets through that one.
Can't see an issue with the flap, just an issue with volume of gas/air mixed that can explode hence -
closest poss position to plenum.
