Archives and Libraries:

Naval History and Heritage Command... http://www.history.navy.mil/

National Archives and Records Administration... http://www.archives.gov/

Navy Freedom of Information Act Website... http://foia.navy.mil/OnlineFoiaRequestForm2.asp

Museums:

USS CONSTITUTION... http://www.ussconstitution.navy.mil/

USS NAUTILUS and Submarine Force Museum... http://www.ussnautilus.org/

USS CAVALLA Museum... http://www.cavalla.org/

USS BOWFIN Museum... http://www.bowfin.org/

USS LEXINGTON Museum... http://www.usslexington.com/

USS SARATOGA Museum... http://www.saratogamuseum.org/

U.S. Coast Guard Museum... http://www.uscg.mil/hq/cg092/museum/

Battleship Cove Museum... http://www.battleshipcove.org/

Mystic Seaport... http://www.mysticseaport.org/

Other Sites of Interest:

Naval Submarine League... http://www.navalsubleague.com/NSL/default.aspx 

Historic Naval Ships Association (collection of all WWII sub patrol reports)... http://hnsa.org/doc/subreports.htm  

Naval League of the United States... http://www.navyleague.org/

U.S. Naval Institute... http://www.usni.org/

International Journal of Naval History... http://www.ijnhonline.org/