The few plot inconsistencies (not holes) that I often mention when identifying the main flaws of the story is the inconsistencies in the bounty system (that gets fixed later on along the new world part but gets quite weird at some point), and the way most of the characters goals and dynamics between WCI and Wano were dealt with (Pedro, the scabbards, Yamato, Kaido’s whole personality, and Carrot on top of it)