All systems will respond a little differently. So there is no one silver bullet for ALL tanks. That being said, the "goal" of the NP BACTO Balance, in a perfect scenario, is not to increase or decrease anything. The NP BACTO Balance is designed to "maintain" whatever the concentrations were that you started with, while still effectively carbon dosing the system to facilitate the PO4 adsorption of your corals.
Unfortunately, the best, most effective way to reduce the NO3 concentration is, as you have already mentioned, water changes. If the system is resulting in lots of NO#, I would take a hard look at nutrient import through foods or possibly other products that are getting added. That NO3 has to be coming from somewhere!