This is kind of important and critical to discuss. What are we exactly going to do about the folder structuring and such.
I am right now creating a structure for my own Dance contest game and I thought: "Hey, if I structure and place everything nice and perform clever usage of INCLUDE_SCRIPT functions, I might be able to pull off a nice directory structure" Guess what. WRONG.
So you might think like this looks very tidy and nice

Sure it is, if you want to summon extreme hell and suffering on your head

I am not going to plan on manually including ALL scripts with their full pathname. That is surely going to cause major shit when like renaming or people moving files. Basically splitting your stage, spellcards, dialogues, events, enemies to different directories is a bad idea. Cramming it all in one location and only splitting sfx, music, images, etc. . is not that bad.
Please keep in mind this for Ijiyatsu. I am currently pulling out my hair and decided it is not worth to produce an extreme superb folder structure.