How Madara(Kishi)doesn't/didn't immediately lay waste to the Hokage, Naruto, and Alliance when he could have easily done so imo. Although...the show must go on. Basically I dislike his reluctance to quickly do away with certain oppositions when he easily could imo.
Exactly the same for Obito, and that he didn't get his eye back from Kakashi so I could see his susanoo.
Itachi...I dislike that he hasn't gone all out so I could see his true power, or rather his "when pushed to the edge power".
How Nagato was so quickly defeated.
That Naruto is so sloppy at times as a ninja. (my opinion) Also, his answers to questions which imo are so corny.
I know it's really Kishi's writtng, Im not complaining or anything these are just things that personally annoy me.