Kind of a ripoff of this movie....
CRASHDIVE from 1998 http://www.imdb.com/title/tt0115965/
Here's the description:
"The crew of the nuclear submarine USS Ulysses rescues supposed victims of a boat disaster, but the victims turn out to be terrorists intent on capturing nuclear weapons aboard the sub. Only a former SEAL, now a submarine consultant, can save the crew by sliding aboard while the sub is underwater."
Sound familiar? Crashdive just had a former SEAL scuba diving to get on the boat. This one just mixed a little bit of Seagal like "Under Siege" action by having some crew members still on board. At least the "Doc" character didn't "used to be a SEAL."
Hardly original, but at least it doesn't have me poking my own eyes out. Not great but coulda been worse, just not even vaguely original.