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I'm running a local instance of Hoogle (via Nix) with my employer's packages and their dependencies. I've always noticed that hoogle.haskell.org has a more logical order for packages when there are multiple hits (ie preferring base). After some searching, I found that this is probably because of a difference in ReorderModule rules. I also see there exists a misc/settings.txt, but I don't know how to supply this file myself or why the default rules result in a different order compared to hoogle.haskell.org.