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The <package>-undocumented.txt file starts with the documentation coverage summary. Below are two sections divided by blank lines. The first section lists undocumented or incomplete symbols. The second section does the same for section docs. Incomplete entries are those, which have documentation, but where e.g. a new parameter has been added.
The <package>-undeclared.txt file lists symbols given in the <package>-sections.txt but not found in the sources. Check if they have been removed or if they are misspelled.
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One can also look at the files produced by the source code scanner: <package>-decl-list.txt and <package>-decl.txt. The first one can be compared with the section file if that is manualy maintained. The second lists all declarations fromt he headers If a symbol is missing one could check if this file contains it.
If the project is GObject based, one can also look into the files produced by the object scanner: <package>.args.txt, <package>.hierarchy.txt, <package>.interfaces.txt, <package>.prerequisites.txt and <package>.signals.txt. If there are missing symbols in any of those, one can ask gtkdoc to keep the intermedia scanner file for further analysis, but running it as GTK_DOC_KEEP_INTERMEDIATE=1 make.