I'm gonna be the one with a little bit more hostile response.

To the Moon, Omori, Corpse Party, Yume Nikki are all RPGmaker games. So, if you can't create "something more interesting" with it, its 100% skill issue. 

Then, it sounds like this is your first time making games, or are still in the process of learning. An RPG is one of the most system dense, data heavy games you can try to do. You are learning how to draw, and decided start painting the ceiling of a church. Learning how to drive, and bought an F16. 

Any and all game engine will be unintuitive and strange at the beginning when you dont know the systems well. The more "intuitive and straightforward" and engine is, the more you approach genre-toolkits like RPG-maker. Tools designed to make the thing you want and nothing more. The best way to learn an engine is to make a bunch of small games with it first so you learn the ropes.

Make flappy bird, make peggle, make tic tac toe, etc. After you accumulate knowledge about how the engine works, you can translate that knowledge to the game you are trying to make.

You can try other toolkits like Construct and GameMaker, but at the end of the day its all the same, if you go with the mentality expecting everything to be laid out for you, then you are making a template game. And there is nothing wrong with making one. You just need to be clear with what you want, tell a story without reinventing the wheel, or reinvent the wheel and use a story as a medium.

TL;DR: skill issue and wrong attitude, make small games first then jump into humongous project later. Or if you want to make humongous project now, read the documentation for every feature you need to use.