I had a very cursory look at the link, the 2 things that come to that might be the cause are the regex expressions, see Marc's answer Re: Re: Re: Some regexp inside ExtendScript freeze InDesign
Or Possibly the file permissions.
Thank you Trevor. That is an easy place to start. I will let you know what happens. -Rick
I'd guess that Frame has some kind of time limit on startup scripts to prevent locking up the app. The way I'd handle that kind of situation in InDesign is by running the script in stages using idle events. I just took a quick look at the Frame scripting docs, and I don't see idle events there.
I would guess the same as Harbs.
ExtendScript knows some alternative startup script locations, maybe one of them works for you? Just make a full disk search for files that end in ".jsx".
On the Mac (no recent FrameMaker here), one file to prepare Illustrator for BridgetTalk is
"/Library/Application Support/Adobe/Startup Scripts CS6/Illustrator/illustrator-16.0.jsx"
You could also keep FM up and running, or launch it separately, then use a different application to launch the script via bridgetalk.
ExtendScript Toolkit comes to mind - you can specify a script file via command line parameter "-cmd"