Anvilicious: After you get the Fishing String from Commander Sampson, he starts lecturing about the dangers of leaving synthetic fishing string in the nature. It comes out of nowhere and hardly fits into the mood of the game, given that the Digimon franchise isn't exactly known for its Green Aesops.
Game Breaker: The "Set" Guard abilities, each of which sets a certain stat of a Digimon to a certain number. A ridiculously low number, mind you. And the bosses are not immune to them. You can humiliate even the final boss by making his stats a fraction of what they are supposed to be and then pummeling away.
Took a Level in Badass: By way of technicality. For the earlier episodes of Digimon Data Squad, Yoshino either lost every battle she was innote Flymon, Shadow Garurumon, Mercurimon AKA Merukimon or never got a chance to digivolve Lalamon, even during her focus episodenote Keramon. Here, game-overs notwithstanding, Yoshino and Lalamon can win every battle they're in your active party.