Whilst I agree that the story of the TSR2 is complex and often surrounded by secrecy, rumour and gossip, the project was a victim of cost, simple as that. The conspiracy stories are very entertaining but the more you look into them, the less evidence there is to support them. It seems pretty clear that if the project had been managed properly, then it would have survived.
Joe, I think you know that I was tasked with writing the book which was intended to replace your Aerofax book, but even that has now been abandoned. Seems that the appetite to pursue the subject has waned somewhat so the subject's dead and buried for the time being, sadly. Hope you manage to resurrect the idea eventually though!