Hi. I think there are different ways to create this kind of game. Like sprite stacking, JRPG-style fake 3d, Isaac/Moonlighter style and it is even easier if you have only one actual "layer" to walk in, like in Don't Starve, but, I guess, it is probably not so hard to manage few - when you can jump onto walls. Godot, must be, can handle this.
Strategy depends on what you need.
