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UPDATE: All American WWII submarine war patrol reports are now available online thanks to HNSA. You can also purchase these reports on disc individually at Submarine Memorabilia.
The Fleet Type Submarine, Navpers 16160, is the first in a series of submarine training manuals that was completed just after WW II. The series describes the peak of WW II US submarine technology. http://www.hnsa.org/doc/fleetsub/index.htm
Submarine Torpedo Fire Control Manual, 1950. This describes how to plan a submarine's approach and attack using the fire control systems on Fleet and Guppy submarines with straight running torpedoes. http://www.hnsa.org/doc/attack/index.htm
Torpedo Data Computer Mark 3, Mark 3, Mods 5 to 12 inclusive, O.P. 1056, 1944 describes the most successful torpedo fire control computer of WW II. It is considered a masterpiece of mechanical computing design. http://www.hnsa.org/doc/tdc/index.htm
Submarine Attack Course Finder Mark I Model 3, O.D. 453, 1922. This describes the circular slide rule commonly know as an "is-was" used to calculate an approach and attack by an submarine. http://www.hnsa.org/doc/attackfinder/index.htm
Torpedo Angle Solver Mark VIII Operating Instructions, O.D. 3518, 1941. This describes the hand operated torpedo angle solver commonly called a "banjo". It is used to calculate the gyro angle when the Torpedo Data Computer is not available. http://www.hnsa.org/doc/banjo/index.htm
A Brief History of U.S. Navy Torpedo Development, by E.W. Jolie, OP 353W or TD5436, 1978. This provides basic information on most US Navy torpedoes up to 1978 (Submarine, Surface and Air). http://www.hnsa.org/doc/jolie/index.htm
Unit Course in Marine Electricity, 1942. Museum ships stabilizing or restoring their electrical systems will appreciate many parts of the manual. Items such as the proper ways of working with armored cable, lacing, etc. are included. http://www.hnsa.org/doc/elect/index.htm
Introduction to Radio, 1946. An introduction to electronics and naval radio. It covers basic tube electronics in the beginning, then explains the basic operating instructions for typical WW II radios. http://www.hnsa.org/doc/radio/index.htm
Notes on Servicing Radio and Sound Equipment, 1942, is a training manual that introduces the art of tube radio and sound equipment repair. This included both receivers and transmitters, and the motor generators they use. http://www.hnsa.org/doc/radiorepair/index.htm
Arma Gyro-compass Mark 7, Mod. 4, 1943, is a service manual for the preferred U.S. submarine gyro-compass of WW II. This was also used on small surface ships that had fire control, but only one gyro. It is very similar to the Arma Mk 8 Gyro-compass used on larger CA, BB, and CVs. http://www.hnsa.org/doc/gyromk7/index.htm
Catalogue of Electronic Equipment, NavShips 900,116, 1952, is a U.S. Navy catalog of electronics that includes almost all the WW II equipment and some of the early Cold War equipment. http://www.hnsa.org/doc/ecat/index.htm
There are other numerous great sources of information out there. PigBoats.com is a great resource on submarines from the Holland up to early fleet boats like the Tambor class.
And of course, if you want to actually SEE most of this stuff in person, make a trip to your nearest museum submarine. There are 6 Gato, 8 Balao, and 2 Tench class submarines here in the USA that you can tour. More on those can be found at SUBMARINEMUSEUMS.ORG.
As far as finding manuals, at least one of the ones you see was purchased for a hefty, hefty price (not sure as to exactly who the purchaser was) on eBay just so it could be preserved and placed online.
You'd be shocked as to how greed affects people instead of trying to do something for the greater good.
There is a place called Submarine Force Library & Museum in Conn. That has everything under the sun involing US subs in WWII but I dont know if it is online I have seen it mentioned in a few books over the years I guess it would a good place to visit if you are an ultra sub buff. You are right people do aquire things that are of no value to them and then try to sell them for a high price. My grandmother once got all this stuff from a lady she knew whose husband had died he was a Marine Corps Corsair pilot and she just gave all thses books he had about Corsairs to my grandmother to give me if I wanted them many of the books even have foot notes the guy had written in them about his experiance. Afew days later my grandmother came by with this old insturment that the widow offerd me in my young ingnorance I did not realize that it was a navagation aid given to pilots of fighters and other small aircraft so I did not take it I thought it was just some old highschool slide rule. I have never seen one of these tolls since outside of a museum oh well. I did one day buy at an antique mall one of those Army dairies that they stopped giving in 43' some time it looked good so I paid $40 for it what a deal! It had been written in by a very firey private who was in supply through out the early Pacific battles so the stuff this guy had to say classic.
I mean this guy should have been a comideian for the stuff he wrote about the Japs, the Army , the brass it is such a good read. I am sure the guy who sold it never even once looked at it though the privates penmanship is pretty sloppy it took me 2 or 3 weeks to figure out his writing.