shokwave comments on Inherited Improbabilities: Transferring the Burden of Proof - Less Wrong
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I think the assertion is that they appear to be coming up with ~20 pieces of evidence and then trying to say that each piece is very strong - or at least, they have done so for the burglary hypothesis, so they might be doing so for the other pieces of evidence too. Naturally, their methods of making each piece look very strong are flawed.
You almost pinpointed the reason why this happening here:
Humans are bad at intuitively handling evidence in general. There is a possibility that this case suffers from a serious malady: presiding judge Massei has decided the correct, accurate decision in this matter is that Knox and Sollecito are guilty, and has strategically prepared the judge's report to get people to decide this way. This hypothesis explains why the judge has produced such a weighty document when 20 pages of it would have sufficed.