"With the "Cousin Smart" option, you can avoid duplicate individuals on charts.For international users, PAF Companion accommodates different paper sizes (eg. A4, B3), metrics unit of measure, and western European characters with diacritics."
So it appears that the new version may already have the features you need.
OK, I just tried it out: I inserted the umlauted u, the esszet (sp?), and (Spanish) enye, and c cedilla into a PAF file, opened it in Companion, and created a PDF which contained these characters. (The F7 key is an easy way to enter these characters in PAF.)