FYI - The Iranians have diesel-electric subs and some of them are Russian-built. One of those off of NYC would explain why a Navy destroyer would be in the neighborhood as well. That would be source of the theory that "we possibly shot it down" with a Navy missile.
See link for more info:
Iranian Sub Involved in TWA 800?
PS - I am not the author of this webpage.
http://www.freerepublic.com/focus/news/1237664/posts?page=34#34
I wonder if these are the subs you saw that information posted about?
The Kilo-class diesel submarines have an endurance of 7,500 miles without refueling. Where did they refuel on their trip to New York and back?