CV's are certainly faster than WWII submarines. Catching a boat from a sub would be a roll of the dice. However, it would make the routine call of "Turn the boat" to evade overhead bombers a more dangerous proposition.
As much as I'd like to see a high fidelity expansion of the game into naval warfare, I'm not sure it's worth the effort. CV's aren't so hard to sink that we need another way to do it, IMO. Doing so also takes us one step closer to "Battlefield WWII", which in and of itself isn't a bad thing, but I'm guessing the finite resources of HTC would be taxed greatly in such an expansion, likely resulting in the above water part of the game suffering.
Given that there likely has to be a choice made of which part of the war you'd like to closely simulate, I'll take the air 10 out of 10 times.