Well this is interesting. Indie game makers have always gone for some kind of Retro games, with FnaF as an exception.
You really don't need to work on the beauty as much if the storyline is great. It's basically your choice where you want to work. Either on blender making the character models, scripting your game, or constructing your storyline. However, you should always start with the storyline before constructing the levels and tiles. Trust me, it'll help.

I'll leave it at that, since I'm not so familiar with these kind of games. But in my uneducated opinion, I don't think indie game makers should be making MMOs.