Nature is not perfect. This may seem absurd to your average pagan, but bear with me:
Consider the design of human beings is really inefficient. Compared to other mammals close to our size, or even in our genus, our infants are born especially helpless and underdeveloped. Plus, our backs aren’t very well-suited for walking upright without assistance — not in the long term; we can manage it when very young, but after the age of thirty, a Posture Pal can’t really help us (fun fact for goths, though: The best period in human posture was the era of the corsets — a majority of men wore them, too, until the Edwardian). I know my friend Scott and others with a background in biology have discussed this in greater detail. As a “finished product”, human beings are very poorly designed, we may not even be good enough to submit as a working prototype, by some standards. Hell, if I was a television, I would’ve been replaced at the age of 24 due to all the design flaws being too much to take — and I’d only been put on the shelf at age 19! Definitely not one of those heavy-duty 1950s sets that took about two months to build, and will still work, today. Any design that takes as long to reach an ideal state as my own physical body, but is barely functioning five years later doesn’t stay in production for long.
And pandas have the internal biology for an obligate carnivore, but their diet is 90%+ vegetarian — the mother’s milk is so lacking in vital nutrients that they have the highest infant mortality rate of large mammals.
Even plants, while certainly better-designed than large, multicellular animals, there are certainly a lot of issues that can appear, when you really know what you’re looking at. Many plants native to the same places and the same habitats — some will need significantly more water or sunshine, others won’t. Laurel and rosemary are very well-adapted to periodic droughts of their native Mediterranean, but oregano and sage, also native to Greece, need water, daily, and more than you’d probably think. Part of this may be due to cultivation by humans, but not all of it, since humans have been messing around with the genetics of plants since the dawn of agriculture, and will generally aim for two goals: 1) How do we make this thing more-edible, and 2) how do we make it hardier, so it can put up with us? I mean, do you know how easy it is to drown rosemary? Easier than underwatering sage, I’ll say that much.
There’s even an ancient truism about the olive tree: An olive tree can shed and disperse a thousand seeds a year for a thousand years, and maybe only a dozen trees will come of it; true, not every tree can survive, but for such a “perfect” creation to spread so many imperfect seeds suggests an internal flaw, as mortals understand “perfection”, which is all we can really understand. It just doesn’t speak to a “perfect” design, is speaks to Someone being stubborn and saying “nope, it’s mine and I’ll fix it on my terms — in the meantime, I’ll get back to smiting those people for that clockwork horror in the 1982 Clash of the Titans.”
The Gods have their own ideas about what to do with things here on Earth, and are constantly tinkering around. “Perfect” is for New Age Christianity — it’s generally unattainable on the mortal level, in all areas. Our realm definitely hosts things that are very impressive, but the Gods Who concern Themselves with our physical world are the artists Who’re never fully satisfied with what turns out, so when They think of improvements, They go and adjust. That’s kind of antithesis to “perfection”, perfect works need no improvements, they’re already perfect. There may be a method to the madness, but it’s definitely far from perfect.