Pichu Brothers are Shiny Pichu is stolen by Celebi with Spiky-eared Pichu determined to find its brother.
Smoochum returns for training.
Togetic returns for the team matchups. Evolves into Togekiss.
Teddiursa returns for training.
Chikorita is taken as Lexi's Starter Pokémon from Professor Elm after he helps her clean up the lab after its burgled. Evolves all the way into Meganium.
Totodile escapes from Professor Elm after being left alone at the lab. He escapes and manages to track down Lexi but is attacked by Silver. Lexi rescues him and has it join her team. Stays in its base form.
Larvitar is caught later on the series. Evolves into Tyranitar.
Raikou, Entei and Suicune are captured by Lexi in order to help her track down Ho-Oh.