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I can't say I know what Farhad Manjoo's reasons for picking this particular example for this article, as all I know about Mr. Manjoo is the articles I've read by him here, and I'm not a mind reader either. I suspect he chose it because:
So yes, I would imagine he was aware that it would attract this attention, as he does seem reasonably intelligent (yes, some of you likely disagree, that's fine. I don't expect to change your mind regarding that, just like I don't expect you to change your mind regarding how you feel about 9/11).
People who agree with the "official" version of what happened that day can't understand how the "conspiracy" people can believe what they do based on the evidence and information they've seen, and the same thing applies the other way around. This article talks about how that divide came to be and is extremely unlikely to be bridged. But the comments are mostly saying, "My side of things is right, why can't the rest of you see that."