A fundamental problem seems to be that there is a lower prior for any given hypothesis, driven by the increased number of researchers, use of automation, and incentive to go hypothesis-fishing.
That doesn't lower the pre-study prior for hypotheses, it (in combination with reporting bias) reduces the likelihood ratio a reported study gives you for the reported hypothesis.
Wouldn't a more direct solution be to simply increase the significance threshold required in the field?
Increasing the significance threshold would mean that adequately-powered honest studies would be much more expensive, but those willing to use questionable research practices could instead up the ante and use the QRPs more aggressively. That could actually make the published research literature worse.
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This implies that the average prior for a medical study is below 5%. Does he make that point in the book? Obviously you shouldn't use a 95% test when your prior is that low, but I don't think most experimenters actually know why a 95% confidence level is used.