The torpedo theory was based on 2 things:
1. there was a known problem with the torpedoes carried by the Scorpion, and
2. the sub was pointed toward the Med, indicating a reversal in course.
THEORY: the sub executed a maneuver to rapidly reverse course in the hopes of preventing a warhead cookoff. Torpedoes that suddenly reverse course are a hazard to the attacking submarine so the warhead is designed to disable as a safety measure.
I don't think this was ever proved, but it's the strongest theory they have that fits the available evidence.
My main source on this is Blind Man’s Bluff also, but it’s been a few years since I read it. An outstanding read - highly recommended. My recollection is the Scorpion chapter was well researched and documented.