Nick- a 2.5" system won't lose you any power at all, also future proofs your system for any future mods.
It goes without saying that camshaft choice should be matched to head modifications and type of aspiration, but a stock G40 cam can be used sucesfully on a 1341cc providing the car is mapped to suit.
As with any modification the key is the mechanical setup and ecu calibration, hence why some cars be they 1272cc, 1341cc or 1478cc produce less than what they should.