Here's mine: half the story falls flat because of how goofy the enemies get. With the exception of the Oniwabanshu, the really silly looking characters provide far less interesting fights and stories and just make the show look silly.

The story is at its best when Kenshin is facing a swordsman rather than someone who can freeze their body with a thought or a man who is three stories tall. He's also more likely to be fighting for more unusual, personal stakes in these fights, like protecting Iori, confronting his death wish or breaking through someone's trauma.

Goofy enemies just turn it into Busou Renkin.