It happens if you try to queue up too many torpedos to transfer to internals at once.
Just transfer them one at a time (one for'ard and one aft) instead of filling all the slots at once.
It takes no more time than otherwise as the torpedos are loaded one at a time anyway.
If you go to the map page and have the torp loading screen up, you can accelerate time as much as you want and you just need to transfer the next torpedo when the previous finishes.
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