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System Agnostic, The System Tag Meaning Not System Specific
The system-agnostic tag is for questions where the asker is looking for answers that are not tied deeply to a specific game system's rules, usually for portability. It is asking in a context that is "agnostic" to the "system" being used. This is extremely straightforward, as @vicky_molokh points ...
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I've been struggling with this one for a couple of years, personally, now. So I'm going to give it a go. (This answer, like mxy's, doesn't stand as a "mod-team answer"--it's just the answer of a high-rep user who cares.)
system-agnostic is supposed to be used like any other tag.*
Tags are supposed to describe the question that is asked.* Corollary: tags ...
The tag facilitates finding questions/answers that aren't tied to a system.
Where the mods or the OP did not intend the question to be system dependent. It makes finding these easier instead of trying to search for question that are lacking any system tag.
For the individual question, it's not particularly meaningful.
A question devoid of system tags ...