I had heard that the primary thing that defeated the Zero was evaluation of a captured wreck where they discovered that the pilots likely didn't have the strength to muscle the controls against torque in certain maneuvers. It meant they ALWAYS turned the other way making it easy to predict and the Zero would travel right across the allied pilot's gun sights. Bob La Londe CNC Molds N Stuff
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reports on the Zero from China were ignored.
It had several weaknesses that resulted from its light weight and strength margin of only 1.5X, less than the standard of the time. The idea was if it could turn tighter than any other fighter it didn't need the weight of protection from the rear. It's been called the ultimate WW1 fighter. Japan wasn't alone in assuming the next war would be an extension of WW1. There was relatively little advancement during the 20's and 30's, Germany, Italy, Britain and Russia began the war with biplanes still in combat use.
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I have designer Horikoshi's book on creating the Zero, in which he details the difficulty of making a new higher performing plane as nimble as an older, lighter one. He was watching a high speed dive test when the plane loudly broke apart from stress and plunged into the sea along with the pilot. That caused the diving speed limitation, some US planes were faster in level flight. At high enough dive speed air pressure froze the controls and prevented maneuvering, the reason why a kamikaze had to be destroyed with 40mm or 5" cannon shells instead of just killing the pilot.
On rec.aviation.military I discussed the book with Erik Shilling who had been the engineering officer of the Flying Tigers in China. He claimed they fought Zeros, or Army Zeros, there's evidence at least some may have been the very similar and even lighter and more nimble Ki-43 Oscar, which lacked the Zero's carrier landing reinforcement and 20mm cannons.
Horikoshi was very proud of his work but not to the extent of making excessive claims, he also described the problems that aero engineering in Japan faced; inflexible demands, limited materials, too few skilled technicians and high power engine development issues they didn't have a stress and vibration genius like Stephen Timoshenko to solve.
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Germany had a similar problem of drafting too many scientists, engineers and technicians. I think some of the wilder proposals for wonder weapons were merely self-preservation attempts. We argued that on r.a.m. with two Nazi supporters who claimed they could have won if only the war had lasted a little longer. The general who commanded the jet fighters had stated if he could have stopped the Allied bombing the Russians would have simply conquered further west.
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mind that the 1200+ jet fighters they did build had little effect, and couldn't even defend their own airfields. AA fire became the main danger to bombers.