I prefer balance by subtraction...
I remember a line in many Game Master guides for RP games, concerning "Monty Haul" or "Cheesy" campaigns...
It's easier to add to a deficient situation instead of removing something the players already have...
IMO, the lack of SFB-restrictions but the inclusion of all limited ships, put us in a "Monty Haul" situation here. Let's cut out the cheese first (preety much done), then start adding in certain areas by little bits in order to bring up or balance the situation.
Thing is, I don't see balance cut and dried as in "everyone needs a 50/50 shot in a fight at 180 BPV." I see balance as being on a spectrum between hex-flipping speed or PvP. The best hex flippers are not PvP optimized, and the best PvP ships are frequently slow hex-flippers.
Also, subtraction does not need to automatically mean removal from the game. As long as we subtract enough from cheese ships so they aren't an overpowering cheese factor anymore, then we can still let them be used while "subtracting" the cheese.
I've got some ideas, I got to get them on paper here someday...