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Origins & Science
 
Design Argument Fallacies, An Anthology of Atheism and Rationalism (ed. Gordon Stein, Buffalo, NY: Prometheus, 1980), p. 90.
If such a God did exist, he could not be a beneficent God, such as the Christians posit. What effrontery is it that talks about the mercy and goodness of a nature in which all animals devour animals, in which every mouth is a slaughter-house and every stomach a tomb!
The Realm of the Nebulae (Yale University Press: 1936), pp. 6, 202.
Research men attempt to satisfy their curiosity, and are accustomed to use any reasonable means that may assist them toward the receding goal. One of the few universal characteristics is a healthy skepticism toward unverified speculations. These are regarded as topics for conversation until tests can be devised. Only then do they attain the dignity of subjects for investigation. ... With increasing distance our knowledge fades and fades rapidly. Eventually we reach the dim boundary, the utmost limits of our telescope. There we measure shadows, and we search among ghostly errors of measurements for landmarks that are scarcely more substantial. The search will continue. Not until the empirical resources are exhausted need we pass on to the dreamy realms of speculation.
Is God a Delusion? A Reply to Religion's Cultured Despisers (Wiley-Blackwell: Dec. 3, 2008), p. 45.
And, if as most theists would agree, God transcends our finite understanding, wouldn't it be better to define "God" in a way that makes our understanding of the divine susceptible to development in the light of critical reflection? What we need is a definition that points us to something without presuming to describe every key detail; a definition that gets all of us "looking in the same direction" so that we can have a debate about the properties of what we're looking at. ¶ Of course, any definition of this sort will make it difficult to test the God Hypothesis scientifically, even if it were theoretically possible to do so. And so the new atheists may view such a definition as a deliberate evasion of their efforts at falsification (I can almost hear the indignation). ¶ My initial response to such views is simply this: Get over it. Since the God Hypothesis concerns a reality that transcends the world investigated by science, it can't be investigated scientifically anyway, and so such indignation is irrelevant. Theologians and philosophers of religion should not be forced, out of deference to those scientists who want to subject everything to their methodology, to adopt a definition of God unsuitable to its subject matter.
Systematics and the Origin of Species (Columbia University Press, 1982), p. 296
[I]t is a considerable strain on one's credulity to assume that finely balanced systems such as certain sense organs (the eye of vertebrates, or the bird's feather) could be improved by random mutations. This is even more true of some ecological chain relationships (the famous Yucca moth case, and so forth). However, the objectors to random mutations have so far been unable to advance any alternative explanation that was supported by substantial evidence.
Populations, Species, and Evolution (Cambridge, Mass: Belknap Press, 1984), p. 235.
The occurrence of genetic monstrosities by mutation ... is well substantiated, but they are such evident freaks that these monsters can be designated only as 'hopeless.' They are so utterly unbalanced that they would not have the slightest chance of escaping elimination through stabilizing selection .... the more drastically a mutation affects the phenotype, the more likely it is to reduce fitness. To believe that such a drastic mutation would produce a viable new type, capable of occupying a new adaptive zone, is equivalent to believing in miracles .... The finding of a suitable mate for the 'hopeless monster' and the establishment of reproductive isolation from the normal members of the parental population seem to me insurmountable difficulties.
Email correspondence with Salvador Cordova, at IDEA (May 18, 2005).
My position is to distinguish between philosophical and methodological naturalism, but of course, the leaders of the ID movement reject this distinction and conflate the two. I think the distinction is real, it should be appreciated, and it is one of the keys to solving the problem of the rejection of evolution. And a lot of scientists agree with me, even those who are nonbelievers. But it's much easier for the leaders of the ID movement to keep flogging Dawkins and Provine than to reflect the philosophical reality out there. ¶ I think much of the antievolution sentiment in the public is because anti-evolutionists have sold the public a bill of goods that because science CAN explain through natural cause, it means that science is saying that therefore "God had nothing to do with it."  Evolution, like all science, explains through natural cause. It tells you what happened, and nothing about ultimate cause. If a religious position makes a fact claim, like special creation of living things in their present form, at one time (the YEC view), science can propose that there are no data to support this view, and much against it. But if God wanted to create that way, but make it look like living things appeared sequentially through time, science of course could not refute the claim. The claim — like all claims about God's action in the natural world — would in fact not be testable (and therefore not scientific) because ANY result is compatible with God's action (assuming God is omnipotent.) ¶ The blame lies partly with science professors and partly with the public. In defense of science professors, students rarely challenge them for making atheistic comments when discussing, say, cell division ("Prof. Jones, you just said that 'enzymes A & B make chromosomes  line up on the equator.' Are you saying that therefore God had nothing to do with it?") When they are discussing evolution, scientists treat it the same way as they treat cell division: here are the natural processes that result in the splitting of a lineage, or whatever. Students are more likely to read philosophical naturalism into methodological  naturalism when the topic is evolution than when the topic is cell division — and we can't blame that on professors. It would help if students would be a little more reflective on this issue! But professors can be more sensitive to this issue, certainly. And I find that once the difference between philosophical and methodological naturalism is pointed out, they "get it", and few argue that this isn't a good idea.