The whole debate is absurd. At its root it pits physical causes against metaphysical causes, as though the two can't mutually exist. The result is that everyone's trying to resolve a question along the lines of "Did you walk to work, or bring your lunch?"
Here's how I see it. If you ask anyone of faith "Is a baby miraculous? Does the birth of a baby represent an act of God?" they'll answer with a resounding "Yes." As a person of faith, I agree. At the same time, people of faith know about sperm, egg, ovulation, implantation, pregnancy, the whole nine yards of the physical process.
Now if knowing that there is a physical process for conception and birth of a child doesn't shake one's faith, why should faith be shaken by the presumption that there is a physical process for speciation?
Does the physical evidence of natural history point to a process by which species have come and gone over time? Yes.
Does this have any implications for the existence (or nonexistence, for that matter) of a sovereign Lord of Creation? No.
Does it mean that we have to choose between the Bible and Darwin? No. I believe that speciation happens by a physical process. I believe that there is a conscious and omnipresent God who owns the process, and indeed all processes. QED.