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Alejandro1 comments on Debugging the Quantum Physics Sequence - Less Wrong Discussion
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By the very nature of the topic, any contemporary examples cannot fail to be controversial. If "traditional" scientific rationality supports position X, then many or most scientists will support X, and the claim that they are wrong and the true position is the Bayes-supported Y is bound to be controversial.
So for non-controversial examples one would have to look to the history of science. For example, there must have been cases where a new theory was proposed that was much better than the current ones by Bayes, but which was not accepted by the scientific community until confirmed by experiments. Maybe general relativity?
Physicists love simplicity, so they are naturally Bayesian. Unfortunately, Nature is not, otherwise the cosmological constant would be zero, speed of light would be infinite, neutrino would be massless and the Standard Model of Particle Physics would be based on something like SU(5) instead of the SU(3)xSU(2)xU(1).
until general relativy was confirmed by experiments, who besides einstien had the necessary evidence? I'm not familiar with the case enough to really say how much of a difference there should have been.