I definitely plan to include AI-controlled subs. I would like to include player-controlled subs, but they'll be a different playstyle (different controls, I'd need to make underwater graphics, the ship designer would need different rules, etc.), so it's really a matter of how well everything else goes and how much time I have.
I do not currently plan to include nuclear missiles, for the same reason I don't plan to include playable aircraft carriers: they fundamentally change the nature of the game in ways I don't want to explore. This is a game about massed "small" weaponry, not about weapons that can wipe out entire enemy fleets with a single shot.
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