X: First your analogy is false. Every advocate of Intelligent Design ends up making analogies that are predicated on a demonstrable falsehood -- EG: "If, we evolved from monkeys, why are there still monkeys?" A. We did NOT evolve from monkeys.
Evolution is an unthinking process that acts towards an end that *superficially resembles sapient intelligence* but is not intelligent. Human beings replicate evolution when they breed cows that are good milkers -- cows that do not provide milk are slaughtered and/or not permitted to breed. In the same way as a brutal farmer, Natural Selection culls animals that do not excel within their environment. The Dodo died as a species because it's environment was changed drastically and the Dodo could not survive in it's new environment or compete against rats orsurvive the cat/dog/human predatorial onslaught.
Rats are an example of a being that has learned to excel in an environment rich in predators (cat/dog/human) and are arguably the most successful species to exist in a Holocene environment.
IF God created all animals, and IF God was perfect there would be zero extinctions. Nor am I exactly crazy about a "Divine Plan" that insures that the most successful mammals are vectors such as rats or mice.
Natural Selection points out that the kind of animals that will dominate a Holocene environment will be animals that are either apex predators (humans) or animals good at evading apex predators (vermin). Thus reason is not outraged -- a simple, elegant explanation.
Further, Natural Selection is a process that flows like water downhill. Guided not by chance but BY WHATEVER WORKS, Natural Selection will allow creatures suited to their environment to survive and propagate; indeed some animals are so successful (EG Crocodiles) that they do not need to mutate to survive and propagate; others (EG Dinosaurs -- Birds) must adapt to a changing environment or be exterminated by ruthless disease, starvation and predation.