since I'm rather intimate with Ford EEC systems, I'll chime in here.
Throttle position is an important piece of information for the pcm (CFI strategy blends alpha-N with speed-density) but it is not exact, and doesn't need to be. Alpha-N fuel control is based on throttle position to determine approximate fuel deliver based on a best-guess of inlet air. Fine tuning is accomplished via closed-loop monitoring (HEGO feedback). Speed-density utilizes engine speed, ambient air temp and air pressure to guess at fuel delivery, also tweaked by closed-loop. Both of these system rely heavily on pre-programmed look-up tables, containing information about that particular engine's VE (volumetric efficiencey). Therefore, running 3 throttle bodies on one TPS is perfectly acceptable. However, driving multiple injectors from one driver transistor does present a problem. I know first hand the stock transistors in a CFI pcm can handle two injectors each (I've seen two CFI units on a 2x4 manifold on a SBF, run by one pcm). Now to run three, I suspect we may need to do some doctoring of the pcm. Its not as big a deal as it sounds. I've done it to run low impedance injectors with a stock pcm (added megasquirt flyback circuit to T-Bird SC pcm). I've not had reason (previously) to look at the drivers in a CFI pcm, but its basically the same surgery. The biggest challenge is finding the correct replacement transistors. After ID'ing the stock drivers, search the web for its data sheet. You will need to find a driver with the same base current and frequency, but capable of higher collector current. Then just desolder the old and solder in the new.