Also from Shawn@PRS
TCI is a combination of pickups and electronics. It's a culmination of everything Paul has learned in 35+ years of guitar building. We've taken all of the variable and made the tolerances extremely tight. Think about the genuine PAF pickups. Some of them sound like the voice of God, while some of them just sound OK. Why is that? Because too many things were left to chance. With TCI we leave nothing to chance and control every aspect of the design and construction. Each TCI pickup set is tuned to the specific guitar. Think of it as a mixing counsel, we've mixed the sound to be exactly what we want, every time.
All Core guitars are getting TCI treatment now. S2 guitars will follow in the near future.
It all stems from the development of the JM635 Pickups in the Silver Sky and each is individually 'tuned' to the pick-ups with the electronics. Its picking the right resistor (or some other part) for the pick-ups to ensure everything coming out of the output jack is consistent. Its this attention that separates PRS from others who use exactly the same parts despite minor variations that lead to instruments sounding quite different despite the fact all the hardware is the same - at least that's how I understand it.
The end result though is that there is even more consistency and PRS can tune their guitars to sound exactly the way they want...
I may not be 100% factual as I don't work for PRS and haven't had it explained to me in detail but that's what I believe is the general gist of what the TCI process is...