I’m just picturing big chambers like Super Metroid, and the characters moving around testing things to see what happens, then putting it together. (Maybe a zoom out button, or the map screen being relatively detailed.) So it could be very similar to the original, just “more”. You’d just need a few sets of puzzles in every chamber, for when they backtrack and revisit areas. Mind you I’m not saying it’s easy to design good levels and puzzles, especially in such a large scale, just that it’s easy for me to imagine it being fun.