My personal favorite for flawed reasons is Madoka because I was there for the live reactions to the infamous episode and it was magical watching everyone lose their shit. It was also my re-introduction to anime after being shamed out of it for liking sailor moon as a kid.
Its a great shounen, with better writting ,consequences and mature characters than the vast majority but its nothing near a deconstruction. Togashi himself would laugh at the idea that he was "deconstructing" the action shounen genre
I dunno, I feel like Gon's arc especially in the Chimera Ant arc is a big time deconstruction of the normal shounen character arc, but maybe I'm crazy.