I wondered if you were still using PAF4, but from your latest posting, it seems like you are using PAF5. I wonder if there is a problem with your data. I suggest that you create a backup, then run Check/Repair 3 or 4 times if any problems are found. Then create a new PAF file with a new name (so that Windows doesn't replace your data file with an empty one), then export all of your data from the current file as a GEDCOM file, then import the GEDCOM into the new empty file. Then generate the website from the new file and see if it solves the problem.