Yeah I didn't have a similar reaction to that stuff (i.e., it seemed fine to me – I agree that the organic earth stuff worked pretty well, and the importance of the specific spells seemed to tie in nicely with that).
The more I'm reflecting on it, the more I think it's hard to totally experience it in retrospect, even going in somewhat blind but also prepared like I did. I don't mean just to assert a boring truism, but I think part of the appeal of the game is really to be found in all the ways you can dig into the puzzle-like structure. The localization/translation hurts on this front and for me, acclimating to the gameplay was ultimately a little inhibiting in that way. I think I will revisit and poke around one day, but I'm not quite interested in revisiting until some time has gone by, even though I also feel like now I'd be primed for a replay because I got some familiarity with the mechanics, if that makes any sense.