P.Z. Myers points out that the Discovery Institute has its predictable “rebuttal” of Judgment Day. Their eight-point rebuttal is, as he says, picking nits. But I think he's wrong about it missing the point of the program entirely.
Basically, the Discovery Institute's Center [for Science and Culture] was in the business of marketing--not research. It had a product to sell - intelligent design -- and was focused on doing whatever it could to sell that idea. (Conservatism's Unintelligent Design, Greg Anrig, Jr.)
The Discovery Institute's “rebuttal” isn't intended to rebut the arguments against intelligent design.1 It's intended to rebut arguments that they aren't very good at marketing. They aren't in the business of doing science. They're in the business of marketing, and they're trying to protect their business – ineffectively.
1If you want to see the Discovery Institute's response, P.Z. has a link.
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