Mitchell_Porter comments on List of compartmentalized people (who both win and fail at truth-seeking) - Less Wrong
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Remember that Newton lived before Darwin. The Bible was the history of the world and nature was obviously the work of an intelligent designer. It may be supposed that Newton's occult investigations were performed rationally, given those premises.
Darwin lived before Darwin too. Or before Darwinism, at any rate. An epistemic rationalist should explore and be prepared to question even the most established premises.