Alright, so it's not a museum but it is a related attraction I'd encourage members to go on. Photo montage video I put together of all the Military ships & equipment I saw while on a harbor cruise this past January. The tour does take you right by Naval Base Point Loma, the homeport of several Los Angeles - class subs, however during my visit they were all deployed.
Nonetheless I still got to see some REALLY COOL
stuff including the USS Zumwalt, both styles of Littoral Combat Ships, a Nimitz Carrier, a couple Wasp Assault ships and countless other naval vessels, choppers and F/A-18's.
So for anyone planning on going to San Diego to see the B-39 Foxtrot sub or USS Midway, hop on the 2-hr tour San Diego Harbor Tour and you'll get to get closer to active Navy Vessels than I thought was ever possible!https://www.youtube.com/watch?v=Cb_fAVoKWcw