Defictionalization - Pokémon in the RP sometimes go on to become part of the players's team in-game, though a lot of the time this is inverted as well. A notable inversion being the GreNinja Squad which started as an in-game team, but a combination of the player liking the concept and the team proving itself to be popular/infamous enough to cement their inclusion in the RP.
Flip Flop of God: Has happened in the past as people have changed aspects of their characters.
God Never Said That: There have been many instances of claims being made regarding statements about the WAAPTverse that have turned out to have never been said.
Loads and Loads of Writers: The RP can have up to 34 active writers at a time, and it would be even larger if you counted the RPers who've left.
Old Shame: The early RP isn't exactly looked at well by most of the writer base that's still around, due to it being much lower in overall quality since it was originally a Forum Game with no continuity.
Real-Life Relative: Gamer and Meddler's players are RL siblings, as are Joseph and Emma's.
Romance on the Set: At least one couple has ended up in a relationship just like their characters.
Throw It In: Some elements of the RP were created simply because someone did something random and the rest decided it was good enough to throw in. Examples include:
Jane's inexplicable Southern accent at the beginning of the RP being explained as a Hoennese (In particular Mossdeep) accent.
Champloo, Dune's Lucario, decided to make a batch of super-chocolaty brownies. It was suggested that, do to the sheer endorphin-releasing goodness of that much chocolate, they should be able to reduce a Shadow Pokemon's shadow gauge. This is eventually how Vega the Drilbur purified.