they and the chicoms have other weapons mounted
here note the sunburn missiles come as both conventional and nuke, a true sea skimming cruise missile who's sole purpose is to take out aircraft carriers. the chicoms have two now with two more on order.
...they and the chicoms have other weapons mounted here note the sunburn missiles come as both conventional and nuke... 1. There are weapon systems onboard surface ships designed to defend against missle threat (the last ditch one being the CIWS gattling gun)
2. There is no counter to a 200 mph torpedo - I can't even think of what the counter would be aside from not letting the submarine get into range in the first place.