If the fuel mapping is correct you will see better torque at all throttle openings. Why do you think ECU will restrict the fueling because of more air getting into the engine and being easier to get it out of the system through the new exhaust cans? It will compensate no matter what position throttle is in.
No, you will not, as the problem is not fuel but air, and i never said that, thank you.
Like starpeve you believe the ECU does some kind of black magic. It does not, it will send whatever fuel is needed to reach the target AFR, this is not an alphaN system nor a carburetor.
The hard part in an engine that uses injection is getting air in and out. Fuel is not a limiting factor. The problem here is that less air is entering the cylinders for the same throttle position when at part throttle.
By removing the airbox cover, you are discarding the system that helps push air in the cylinders.
By removing the stock silencers and replacing them with a straight through, you are discarding the scavenging system that helps pump burnt gas out of the cylinders and replace it with fresh mixture when valve overlap happens.
Both these effects take place around a specific rpm and its first and second multiple (called second and third harmonics), on a race engine they will be set for high rpms (and you will lose top end power by changing the silencer and/or the airbox on that kind of bike. The only reason to ditch the silencer is weight gain).
On bikes like ours, that were never meant with top end power in mind, they are set to work at lower revs. They can restrict flow, and since they are not set for max power, this is why they get removed. Put bigger exhaust cans and a bigger airbox, and these systems can be used without restricting the maximum amount of air that can enter the engine... but there is no room for that.
Anyway, removing these systems when they are not tuned for max power and restrict max engine flow allows more maximum flow, which is in effect when the throttle is opened a lot.
You will find countless pages of explanations regarding this on google, search for "airbox tuning" or "airbox resonnance" , and exhaust scavenging effect.