In this section we deal with questions related to cross referencing between parts of your document, and between your document and the outside world. This is where Hyperlatex gives you the power to write natural HTML documents, unlike those produced by any LaTeX converter. A converter can turn a reference into a hyperlink, but it will have to keep the text more or less the same. If we wrote "More details can be found in the classical analysis by Harakiri [8]", then a converter may turn "[8]" into a hyperlink to the bibliography in the HTML document. In handwritten HTML, however, we would probably leave out the "[8]" altogether, and make the name "Harakiri" a hyperlink.
The same holds for references to sections and pages. The Ipe manual says "This parameter can be set in the configuration panel (Section 11.1)". A converted document would have the "11.1" as a hyperlink. Much nicer HTML is to write "This parameter can be set in the configuration panel", with "configuration panel" a hyperlink to the section that describes it. If the printed copy reads "We will study this more closely on page 42," then a converter must turn the "42" into a symbol that is a hyperlink to the text that appears on page 42. What we would really like to write is "We will later study this more closely," with "later" a hyperlink--after all, it makes no sense to even allude to page numbers in an HTML document.
The Ipe manual also says "Such a file is at the same time a legal Encapsulated Postscript file and a legal LaTeX file--see Section 13." In the HTML copy the "Such a file" is a hyperlink to Section 13, and there's no need for the "--see Section 13" anymore.