I can't believe I'm reading an article touting the design smarts of the Thinkpad designers... honestly I've always thought that the standard black Thinkpads were unspeakably ugly. And I'm not even a design snob. Usable yes, but aesthetic? No way.
You're confusing design with visual appeal. Steve Jobs loved to rant about design and longetivity, but Apple laptops only seem to excel on visual appeal (and this is a recent phenomenon - just look at the first PowerBook G4s). Design has to be functional, and this is where Apple always makes sacrifices. Bringing chiclet-style keyboards back into vogue (to the point where even Lenovo now puts them on Thinkpads) shows…
I don't know what you are talking about--you are WAY overstating your case. My 11-inch MacBook Air is by the far the most ergonomic and pleasant-to-use laptop computer I have ever owned. The keyboard on it is by far the best laptop keyboard I have ever used, and the trackpad is revolutionarily wonderful compared to any other trackpad I have ever used.
That being said, I do prefer Thinkpad-style nubs to trackpads. Also, I find Thinkpads to be beautiful, not ugly. Also, I would agree that Apple does at times make unfortunate ergonomic decisions, like the lamentable and fortunately short-lived round mouse of a decade ago, and Apple's current laptop-style keyboard for desktop computers is a bit questionable. This doesn't bother me, personally, as I use a Kinesis keyboard anyway. Also, since Apple's laptop keyboards are so good, I think they actually might be better than most desktop keyboards anyway.
I don't find Apple to be any worse in the regard of form-over-function than another other company. The ergonomic improvements that they've brought in recent years far offset any ergonomic harm that they have done. One thing that Apple did get right with it's desktop keyboard is a return to small keyboards rather than the monstrosities that the industry has been foisting on us for the last few decades. The current small Apple keyboards remind me of "Happy Hacking" keyboards, which are the way that keyboards should be.