A group of Team Rocket members tries to relaunch the old team. They take over Goldenrod Radio Tower, and broadcast a radio announcement intended for Giovanni. Only in HeartGold and SoulSilver is it revealed that Giovanni does hear the broadcast, from his hideout in Tohjo Falls - an event in the remakes involving a time-traveling Celebi allows Ethan and Lyra to travel back in time and defeat Giovanni at the same time the rest of Team Rocket is being defeated. Like before, once defeated, Giovanni will disappear. Later, in Kanto, it is revealed that Blue took over the Viridian Gym after his disappearance.
The Celebi event also reveals some of Giovanni's background from the three years between Generation I/III and Generation II/IV. While it was mentioned in FireRed and LeafGreen that Giovanni has a son with red hair, the son's identity wasn't revealed until the time-travel event in HeartGold and SoulSilver. As many fans speculated (and as was mentioned in the Pokémon Adventures manga series), this son is the rival of the Johto player character, Silver. Much of Silver's personality is a result of the treatment he received from Giovanni, which includes abandonment. Like many of Giovanni's other actions throughout the games, this reflects on his selfishness.