I'm not saying roguelikes can't improved upon and do something fun and new with the genre, every once in a while someone comes up with some old, outdated concept and does something interesting with it, and I'm sure there are games like that.
However, my main gripe comes in the form of something like The Binding of Isaac, losing and then having everything reset, new rooms, new layouts, new monsters, so in the midst of getting wiped out by flesh monsters I can't think how to avoid them next time around. Even before Super Meat Boy's levels became too ridiculous to complete and be fun at the same time, there was the resets and timing, and seeing all your previous attempts end in failure. For Hotline Miami it was the fact that I KNEW that sniper/dog was hiding out in that one corner so remembering to dispatch them quickly. Even going back to something like VVVVVV there was knowing how I fucked up and how to overcome it. It's what makes video games the thing they are.
Even then, TBoI is still looked on favorably, there are lots of games being roguelikes absolutely do not work in their favor.