I tend to put the JS In the same place as the minified.
But if I don’t I will note in my review notes that I put it in another folder.
Yeah generally you should keep the zip as “small” as possible, but the non minified JS in another sub folder is generall fine, as is the same folder.
Not much worth in trying to “hide” your non minified versions since anyone good with JS can unminify JS, just means the vars might be jankified.
Twitch wants the “clean” unminified for better comparison between minifified/unminified and use minified to unminfied programs are not 100% clear.