Fuel management vs airbox mod . Real world experience welco

Can you guys school me on this ?

Current setup

Slip on with stock headers
Ejk fuel program
Flapper mod
Stock gearing

Running ejk recommended at
3 2.5 0.5 4.5 3.5 2

Running without an issue at this moment.  

My question is .. if I were to remove side air filter door , should I be adding fuel to some setting since I'm getting in more air to chamber ?

Thanks in advance!