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I suspect this is an artifact of the PDF packaging process for release, and possibly an artifact from an earlier version of the file. You can co-package a raw text (Postscript + images) version and a "flat" page-image version of a file together as a single PDF, and that's what it looks like you might be observing here.I noticed there's hidden text on page 124 of the user's manual, unmasked and...
View attachment 21892
I don't see anything jump out at me that's significantly different... looks like maybe there were in-situ cross-references to other sections of the manual at some point that were removed? If so, I understand why... PDF doesn't have automatic reflow of links when edited, so anytime you add or change anything, every single one of those cross-references would need to be updated throughout the text. The right way to govern this sort of thing is by authoring and maintaining the document using a structured document language like LaTeX.
Let us know if you can extract anything that deviates significantly from the text in the existing Handbook.