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Did you read the Harrit et-al paper? I've not run across any scientifically compelling challenges to the material, though I've not looked for a while.For me personally, I never paid any serious attention to this for several reasons. Maybe because of some work I did decades back I am familiar with thermite, which most people are not. And with nano-thermite concepts, although I did not work with it.
First, if thermite was used at one specific point in a huge skyscraper, people are simply not going to be finding evidence of it in dust. "Evidence" would be parts per billion or trillion in dust at the site. Translated, it simply would not exist, and that's not even taking into account the issues of the molecular and granular structure of thermite.
Somehow the 911 conspiracy nuts want to assert "nano-thermite," not just thermite. This is a curiosity, but it has for them a big advantage: Nano-thermite is a very exotic laboratory creation, therefore it has to be a government deploying it, therefore it must be the US Government.
The report you mention, I stopped reading after the guy started talking about Fe2O3 being an "unreduced" form of iron. Hell, it's RUST. It's fully reduced, but at a certain temperature with Aluminum, aluminum will grab the oxygen, resulting energy release. Rust is everywhere. It's a powder. Powder is "nano." Powdered metals are used in paint. Duh....
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If 'natural', I would have thought that the structures that described in the paper would be reproduced all over the place in a lot of buildings and/or building debris and someone would have popped up demonstrating the phenomenon and discrediting the paper right away. Never saw that happen.
In fact, and I think that the paper made it quite clear, the material seems to be quite specialized. Arguments that it is 'natural' seem to be of the same category as arguing against evolution because of a 747, wind storm, junkyard, etc. To me.
I would also point out that just because something is high tech does not mean it is US Govt. Just the opposite in our country due to the way we are set up with most technology originating in the 'private sector.' I don't argue or believe that 'the US government did 9/11', but I do argue that it is a near certainty that the operation included the participation of individuals who had influence at various levels of our government. 'Had influence' because in many cases they were generals, DOD persons, vice presidents, etc. The same argument applies to various other nations as well. In particular, Saudi Arabia, Israel, and Pakistan who all had nationals playing a role in certain aspects of the operation.