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A slight issue is there is already a published preset of mine by that name, and there has been at least one game played with it.

No, there is no record that anyone has ever played it. See here:

https://www.chessvariants.com/play/pbm/logs.php?gamecmp=eq&game=3D+Chess+War&age=0&stat=any&logcmp=eq&log=&tcmp=eq&tourney=&sort=age&userid=&submit=Submit

So, it wouldn't be difficult for you to replace it yourself.

I would need to redirect games to a renamed preset (by myself I guess) as well as a renamed Rules page (by an editor? I'm not sure I'm allowed to do it without checking).

You should just be able to replace the preset and the rules page, and I can delete the old ones.