The purpose of the counter is to tell vBulletin how many Replacements and Templates to add to the templates table. Since the only distinction is the ||| separators, it adds the first number to the Replacements and the second number to the Templates. If it only says 116 Templates when there are actually 243, then it won't add them all.
Imhotep, in your comment above about uninstalling the templates...
You need to run the install script whether you're adding the custom templates to your style file or not. The install script adds the templates as Global Default (-1). Then when you add your custom templates per style and upload the style, it will add them as the templatesetid. You probably won't need custom templates for all your styles, so the Global Default templates kick in so you don't get a blank page.
jjj0923, as soon as I get things done with my server, I'll PM you and help you out as best as I can.
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