I think you missed swapping rods, and then re-balance the whole mess in your easy, simple, cheap and quick conversion.
Reprogramming the drivetrain is a lot more work for a turbo. The big one is you no longer get to use low intake pressure to get the auto to downshift, as you might now still have boost. And you want to shift from power to torque peaks, so not only are you tuning the engine but tuning the transmission too. Which is why using the t-bird module is the wimps way out - Ford has done 90% of the thinking for you.