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I find Peter Singer's argument that animals' (specifically mammals') capacity to feel pain which according to him makes them intrinsically worthy of special status rather faceious as evolution is scientifically proven to not be teleological. If I uproot a cabbage (in the process killing microbes and insects) and eat it, how am I any more immoral than if I kill a cow or a dog and eat it? Why is an organism's place on the phylogenetic tree so special?

I'm having trouble seeing what evolution has to do with it. Many animals, Singer supposes, feel pain. Pain (roughly; the refinements won't matter here) is intrinsically bad, no matter what sort of creature experiences it. Whether animals (or humans) feel pain because of evolution, because a God made them that way, or because we're all sentient animaldroids, designed by mad scientists from Mars is beside the point. Singer's thought is that pain is bad for us, and animals are no different from us in that respect. He isn't making a point about the phylogenetic tree. Cabbages don't feel pain; cats do. So when we're calculating the balance of pleasure to pain, the cat's pain (or pleasure) should be included in the calculation. But since cabbages aren't sentient (so far as we know), there's nothing about the cabbage to add or subtract.

The moral of some science fiction stories is that humanity shouldn't "play God". Why not? Is it just the issue of our own ignorance and incompetence, or is there something fundamentally wrong with trying to tamper with the natural order, even assuming we understand the consequences and know what we're doing?

Part of the problem is to decide what counts as "tampering with the natural order." In at least some senses, we "tamper with the natural order" all the time. Modern medicine is a clear example, but you could even make the case that selective breeding of the sort that farmers and gardeners have practiced for centuries is another case. Most of us don't see these as wrong. It may be useful to step back and look at the phrase "playing God." If there is a God, and if that God has designed a providential plan that works to our benefit and if some sort of intervention would amount to thwarting that plan, then that would be a reason for not making the intervention. Those, needless to say, are big "ifs." However, even if we grant them, we're left with the problem of deciding which sorts of interventions would count. God's plan -- even if there is one -- isn't as clear as some would like to claim. But let's leave the theological issue aside. You ask whether tampering with the natural order is...

To what extent can anything be unnatural if every substance initially came from the earth to begin with? Wouldn't that make all things natural? A colleague of mine reminded me that there are ways to alter different things, but does that make it unnatural if the process by which we have altered a substance is natural? Such alterations exist via heat (natural), combining with another substance (which is also natural) to cause a reaction, and so on... But what makes something (a product of a reaction, perhaps) unnatural? Say reactant A, which is natural, is combined with reactant "B", which is also natural, to create a product which we would call unnatural. How can we call the product of two natural substances unnatural? To make a long question short, what is the difference between natural and unnatural? Keeping in mind that all things are naturally found on earth. What makes something "artificial"?

If "natural" means "part of nature broadly conceived," then it's hard to see what's uncontroversially not natural. But what this really shows is that there is mre than one meaning of "natural" and more than one contrast that someone might make. Someone who believes that the material world was made by an immaterial creator would contrast the natural with the supernatural. On that usage, more or less everything in space and time would count as natural. But someone might also have the distinction between natural and artifactual in mind, and if that's what they mean, then my computer is not natural, but the flower on my windowsill is. No contradiction here; just a different distinction. As for what makes something an artifact, that's not easy to say with real precision. But it's easy to come up with a wealth of examples that more or less everyone will agree to. (The fact that we can't articulate a distinction doesn't show that we can't make a distinction.) There's another notion of ...