Use what ever management you want.

Aftermarket stuff is user friendly as they are designed to be mapped easily where as the Ford stuff is designed to be mapped by them only and is encrypted heavily which restricts you to tuners who can work round that. Cossie management is just Webber Marrelli and most tuners can map that although some are better than others.

Aftermarket systems are most flexible with more options to run things like air to air boost control and mapped boost control, closed loop boost and fueling (sensors measure and auto correct the fueling/boost) anit-lag, water injection, coil packs, launch control, traction control etc etc...

How big is your bank balance and how far do you want to go is the question you want to be asking yourself...

Fitting it all is a different matter....