The upshot is that most philosophers of biology now hold that biological properties supervene on physical properties (where supervenience is taken to include some kind of "in virtue of" relation), and that fitness and other biological properties are not identical with physical properties.
Elliott SoberIf you have evidence that C1 is a cause of E, and no evidence as to whether C2 is also a cause of E, then C1 seems to be a better explanation of E than C1&C2 is, since C1 is more parsimonious. I call the version of Ockham's razor used here "the razor of silence." The better explanation of E is silent about C2; it does not deny that C2 was a cause. The problem changes if you consider two conjunctive hypotheses.
Elliott SoberDarwin and his successors have railed against the fallacy of confusing the current utility of a trait with the reason the trait evolved. For example, Darwin argued that skull sutures in mammals did not evolve because they facilitate live birth; the sutures were in place well before live birth evolved. Checking the chronological order in which different traits evolved in a lineage is one way to test an adaptive hypothesis; the fact of common ancestry is what makes that checking possible.
Elliott SoberCurrent organisms have a higher probability of sharing a single code if the common ancestry hypothesis is true than they'd have if the hypothesis of separate ancestry were true. That is, the simpler hypothesis has the higher likelihood in the technical sense of "likelihood" used in statistics.
Elliott Sober