I understand that, but in the case of tuning the airflow is the variable not the fuel. We know what the fueling is, that's why injector data is so important.
i do understand what you are saying about the stock MAF transfer, the calibration engineers spend a lot of time calibrating the MAF with expensive equipment. But as soon as you change anything in the intake tract it skews the calibration. I've seen GTOs with a vararam that the MAF has changed 25%.