While I'm no expert of MP, I've seen (and experienced to some extent) corvette rushes that are extremely hard to counter. You need flak frigates to deal with them, but you don't usually get these unless your enemy is massing carriers. Giving some flak capabilities to cap ships and SBs would increase your odds of winning battles against corvette heavy fleets. It would also fit "lore" wise, since bigger ships usually carry many anti-aircraft guns (heck, just watch any documentary on WW2 pacific sea battles, and you'd see that ships are equipped with dozens of AA guns. Scary stuff when they fire at will).
As of now, only Titans are naturally equipped with Flak guns. Why can't cap ships get at least one? Not only could it help balance the game, it would also look cool as hell.