Hi Catherine, my young Christian friend 
Of course, the clever people may be wrong.
They often are. 
But for me, there are a number of obvious problems with ID and IC, many of which are exposed – in my opinion respectfully, honestly and thoroughly - by Ken Miller (and many others of course). While lots of things in nature have the *appearance *of design - especially to the layman - modern biology and genetics can demonstrate how this apparent design came about purely through the Darwinian process of natural selection acting on genetic mutations. As I understand it, this is basically Richard Dawkins’ argument in The Blind Watchmaker (which I haven’t read), refuting William Paley’s famous argument - a version of which you reproduce in your post – that if we see some complex machine such as a watch (or a computer) we conclude that it was designed, and apply that logic to a complex biological ‘machine’ such as the eye or the flagellum.
Whether we like it or not, there is a strong consensus among the global scientific community a) that Darwin’s theory of evolution is correct - as near a scientific ‘fact’ as any theory could be; and b) that ID and IC are incorrect.
ID is, I tend to think, sort of self-refuted by all the evolutionary ‘dead ends’ – those prototype animal species that quickly died out because they weren’t very good at surviving. If God wanted to design, say, a whale, why didn’t He just design a perfect whale and be done with it? Surely the Great Designer wasn’t so incompetent that He had to have numerous ‘goes’ at a particular animal before getting it right? (I believe Miller says something along these lines, don’t have the book with me right now.)
IC is, to coin a phrase, a more complex subject to a dolt like me. But at the most basic level IC asserts that some complex biochemical structures or ‘machines’, such as the flagellum, mammalian eye, or mammalian blood clotting mechanism, are so complicated that if you remove any one of their parts they no longer work. Hence they could not have evolved from simpler cells, simpler machines, because evolution (which they accept) can only act on an existing structure, cell, machine or whatever, it cannot simply ‘magic up’ a new one out of thin air.
But Miller and others refute this by saying that simpler – much simpler – versions of things like the eye or the flagellum do serve some useful purpose. A bunch of light sensitive cells do not constitute an eye as we know it. But they could confer some evolutionary advantage on the primitive species possessing them. Hence a very crude eye could, over millions of years, evolve into the complex eye we have in our heads today, even though according to Behe the eye is irreducibly complex. (Again I am basically paraphrasing Miller from memory.)
Now I may well have got all this wrong. Please let me know if I have misrepresented anyone or any theory here.
And naturally (!) there are a substantial number of scientists who dissent from the majority view. And as I said in previous post, just because the majority believe something to be true, doesn’t make it true!
However, with Ken Miller - and CS Lewis, actually - I am very wary of declaring *anything *in the Universe that God has made to be totally impenetrable to scientific study. Science tells us how things work. It cannot, ever, tell us *why *things work, or how the seemingly immutable laws of physics that govern how things came about themselves came to be. Much as atheist scientists like Richard Dawkins and Stephen Hawking would wish it to be so, a ‘law’ cannot create anything, it simply explains the workings of something that is already there.
Hawking has gone on record as saying that a) cosmology is purely a matter of science, and religion and philosophy are irrelevant to such puzzles as how the Universe began, or whether it was designed to sustain life (which it certainly appears to have been); and b) the laws of physics are themselves sufficient explanation for our life-sustaining universe. Unfortunately he completely fails to recognise that he shoots himself spectacularly in the foot here. Because of course, statement b) is purely philosophical, not scientific. It is also just as much a faith position as theism.
My worry is that if we posit the necessity of ‘supernatural intervention’ by God in evolution, in the form of ID, and science subsequently demonstrates empirically that we are wrong, this could well have the damaging consequences both of undermining our faith and confirming what the atheist already says, ie that Christians are gullible, ignorant, irrational, anti-scientific etc. This is basically Lewis’s argument, articulated in a number of places but specifically in his essay Religion and Rocketry.
The bottom line for me, Catherine, is that the Bible says God created the Universe and everything in it. I believe it and Him. I do not believe the Universe created itself. But I also believe science can and does reveal the wondrous mechanisms through which God created, and continues to create every day. That God does not need to ‘intervene’ in evolution by special creation or ID or whatever, does not diminish His glory; if anything it makes it even more wondrous!
I look forward to your ‘mystery’. 
Peace and love
Johnny