- IGN gave Yo-kai Watch 2 a 5.5, while most other reviewers had cited it as an improvement over the first game. Although, several factors make it apparent that the reviewer had hardly played through the first game, such as thinking that the Purify system was new to the sequel.
- GameXplain's review also received flak when it became obvious that the reviewer only played through the first few hours of the game by not mentioning any additions like the Blasters mode and online battling.
- Author's Saving Throw: Yo-Kai Watch 1 received criticism due to the fact that it made befriending Yo-Kai difficult due to the fact the player couldn't tell which Yo-Kai's favorite food was and there being no way to increase befriending chances. In Yo-Kai Watch 2, not only can you tell which food to give each Yo-Kai, but thanks to soulcery and the Yo-Kai Watch Model Zero, befriending gets a whole lot easier.
- Big-Lipped Alligator Moment: The conversations Nate and Katie can have with either Whisper and Jibanyan, their human or Yo-Kai friends or civilians on the train. No matter what the topic of discussion is or who they're talking to, it's always Played for Laughs and never brought up outside of the train... Unless they repeat themselves.
- Breather Boss: Kin and Gin are fought right after That One Boss Dame Dedtime. They're much easier to beat.
- Critical Dissonance: Critics gave Yo-Kai Watch 2 mixed reviews to the point of it getting a lower Metacritic score than the first (currently 72 to the first game's 76). However, the game has been received much more positively by players and fans of the series, generally being considered by them to be a huge improvement over the first game.
- Jerkass Woobie: Dr. Maddiman in the second game. He gleefully tried to take your heart and was working for the Big Bad in the first game and experiments on other Yo-kai, but then you read his diary entries and find out his backstory and the reason for his research. Even the player character ends up feeling sorry for him.
- Scrappy Mechanic: The train riding segments are not very well liked.
- Sidetracked by the Gold Saucer: The Yo-kai Watch Blasters app in Yo-kai Watch 2 is very addictive, especially in Japan, where it even got its own Spin-Off series.
- That One Boss: The Big Bad Dame Dedtime can be this in both times you fight her. In her first form she's capable of stealing a level from your Yo-Kai and creating a Wicked Yo-Kai based on your own Yo-Kai's level. This causes the fight to drag out especially since she constantly inspirits your party. The second form is even worse. She can steal watch functions from you meaning that sometimes you can't purify or use items, not to mention her inspirits and powerful Soultimate Move.
- That One Sidequest: The key quest "Retrace Dad's Steps" gives many players troubles. It involves befriending a Flushback. Flushback are relatively rare, only available in a cave out in San Fantastico, and their favorite snack is the extremely hard to find soba (which can predominantly only be found by following a delivery man on a sunny day and waiting until he drops soba).
YMMV / Yo-kai Watch 2