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I have taken the liberty to download the file and import it into Mobipocket Desktop Reader and I get almost the same look you show in your images.
A good example is the wavelength definition - your 1-8a.gif file - and the rubbish at the end of the page is exactly the same:
GLVWDQFH EHWZHHQ $ DQG ( RU % DQG ) HWF LV RQH ZDYHOHQJWK 7KH *UHHN OHWWHU ODPEGD LV XVHG WR
So I would not disagree with bwaldron in that Amazon’s conversion mechanism is the same (or a very close similar) as the one used by the Mobipocket Desktop Reader.
Final: I do think it’s useless for these kinds of documents.
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