The one I'm trying to edit specifically is the base template for the Vampire Fledgling... I can't remember the exact id but it was something to the effect of "EncVampireFledglingTemplate00"
So yeah, most of the templates take the script from their base object. Either uncheck the "Use Script" box or edit the script data on the ActorBase that the template inherits.
(I know you said there are some non-templated ones that have it disabled, but unless you can tell me which ones, I can't help.

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