Two things else to check for then. #1, the "Dud Torpedoes" thing on the Options screen, the box is empty, correct? If you are in a career, there is another options thingie that you get to from the Captain's Office, by clicking on the wooden console radio toward the left side of the room. Be sure that is set the way you want it. #2, if you "shell-out" to Windows by using the Windows key, or the <Ctrl> or <Alt> <Tab> key combinations, the game gets confused when you come back into the game, though a Save and exit will usually clear that for the next time you load the Saved game... Beyond that, if you turn "Dud torpedoes" off, then you should not have any duds...