Settings like the document text or external programs paths can not be stored within PDF Frag. You must edit the files in the "definitions" folder. In general at least "tools.ini" should be modified. The contents will be decribed now.
Contains the header related part description of a LaTeX document. All the text and whitespaces will be used.
Contains the document related part description of a LaTeX document. All the text and whitespaces will be used.
Contains the pre and post commands for automatic floating point number conversion. The two relevant lines start with "pre=" and "post=". Complete lines except the markers and the line break will be used. To select the checkbox insert a new line containing "selected", remove it to deselect.
Contains the paths of the extarnal programs. The relevant lines start with "latex=", "dvips=" and "ghostscript=". Complete lines except the markers and the line break will be used. So keep care of not using additional blanks.