Fundamentally, this makes sense. The software does not work using that logic, however. The software solves the sugar balance by having the user define the amount of sugar from the grain which makes it into the fermenter (Brew house or total efficiency). This means that the mash efficiency floats to provide that amount of sugar from the grain bill. If you make a change in your process losses which impact the amount of sugars that get extracted from the mash, then it is up to the user to recalculate the impact on the brew house efficiency and adjust it accordingly.