I have noticed that when FMPro 13 is printing all the scripts in the Manage Scripts window, some scripts are skipped and replaced by blank pages at the end of the printout.
It turns out that an empty script was the source of this problem. When FMPro 13 is printing the scripts and encounters an empty script, it will skip over some number of scripts and print blank pages at the end of the printout for the scripts it skipped over. Oddly, it does print the empty script correctly with the page header & footer and no body text. Adding a comment step was sufficient to fix the problem.