Well, you got something cool here, but I believe you're on the wrong direction... This game format has a lot of potential for good storytelling, good puzzles, and an overall great adventure! But that is not the case, the real gameplay here consists of the stealth section, which is a bit frustrating when you play for the first time and doesn't understand, then it just gets easy when you know what to do; and then there is the boss, which is quite hard, but not very interesting since all you're doing is just clicking.
What I'm trying to say is that the Pico School format is really coo, so use it's strengths! Puzzles, character dialogues, environmental story telling and yes a few enemies and bosses here and there, each with some unique and interesting twist or puzzle attached to, but I wouldn't actually give the player a full game over, just a "go back to the previous room".
Hope this feedback helps you improve, keep making games ! :)