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I've heard some critiques to the part of the sequences concerning Quantum Mechanics and Conscience; but I always considered those as a demonstration of applied rationality, say, “How do we get to the correct answer by applying what we've learned?”
This is way more obvious and way more clear in Inadequate Equilibria. Take a problem, a question and deconstruct it completely. It was concise and to the point, I think it's one of the best things Eliezer has written; I cannot recommend it enough.