When Quinn asks David Kemmons (cousin of the murdered sailor) where he's from in Maine, he answers "Derry."
Derry is a fictional town that appears in many of Stephen King's novels.
When discussing where Bishop plans to hide McGee's ring, she says "to keep it hidden, keep it safe". This is a quote by Gandalf in Lord of the Rings when talking about hiding The One Ring. Previously in the episode, Bishop also comments that McGee is acting like Smeagol in regards to the ring. Smeagol, also known as Gollum, is the character in LotR who became possessed by the ring.
The vessel in this episode called DDG 141 Hoover, is actually DDG-141 Deyo, an Arleigh Burke-class Guided Missile Destroyer.
Darin Toonder (K.P.'s agent/lawyer) and Andrea Grano (Commander Reyes) appeared in episode 4.14 The Blue Butterfly, of ABC's now cancelled "Castle".
Both Wilmer Calderon and Michael McMillian also guest starred in the TV show Veronica Mars, though not in the same episode.