No one knew that villains had survived the Zordon's wave in the year 1998, and didn't surface until five years later. These villains were Archerina, Gasket, Cogs, Momma D, Putra Pods, and Porto escaped on the Space Skull and Havoc's spacebase. They were out for revenge. But to get the full story, you will have to know what happened.
The Final Confrontation. This is when the major battle occurred. The UAE began to invade the entire universe. Soon Earth was left, and Astronema had already destroyed the Mega Voyager and Delta Megazord making it an invasion of the entire universe, and it had worked for a while. The Mega Winger is destroyed in the invasion.
Until Darkonda, power hungry, attacked Dark Specter. They ended up destroying each other. Astronema took control, but then Andros killed her and Zordon. Zordon turned into a golden energy wave, which turned Ecliptor to sand, and turned the dead Astronema into a living Karone. His wave spread, demorphing the space rangers on Earth, and turning Elgar, Quantrons, and Piranitrons to sand.
Across the universe, Master Vile, Rita, Rito, Goldar, Finster, Scorpina, Zedd, and Divatox were turned into good people. Master Vile was turned into King Vince of Vera. Rita and Rito were turned into Princess Rachel of Vera and Prince Rick of Vera. Goldar and Finster were turned into Gaudiar and Finn, brother warriors of Vera. Scorpina was turned into Sabrina, daughter of Ninjor and Dulcea. Zedd was turned into Zad, twin brother of Zordon. Divatox was turned into Diana, Dimitria's twin sister.
Mondo, Machina, Sprocket, Klank, Orbus, Cogs, Havoc, Rygog, Piranitrons, Goldar, and Putties were turned to sand by the energy wave. But Gasket and Archerina took the Tengas and1/3 of the Cogs. Then boarded the Space Skull. Momma D took the Putra Pods, the Chromites, and 1/3 of the Piranitrons with her, and boarded Havoc's spacebase. The spacebase and Space Skull jetted into a portal to the Lost Galaxy.
Scorpius and Trakeena tried to destroy Maranoi and Terra Venture. Furio put a stone curse on the people, and also sent Mike into a crevice. The rangers escaped to Terra Venture, just in time. Leo killed Scorpius, then Trakeena wanted revenge against him. Terra Vennture was sent into the Lost Galaxy. Captain Mutiny tried to destroy Terra Venture, but Trakeena destroyed him and his forces, once Terra Venture escaped with Mutiny's former slaves. The Final Battle: Mutated Trakeena vs. Battelized Leo on the remains of Terra Venture which was plummeting towards Maranoi. Leo killed Trakeena, and the rangers made it off before it hit Maranoi. The rangers removed the stone curse by returning the Quasar Sabers into the stone.
Demons were freed in Mariner Bay, and attacked. A team of lightspeed rangers fought the demons. Near the end, the sixth ranger had been recruited by the demons to fight for them. But the rangers convinced him to join their side. And together, the six rangers trapped the demons back into the crypt, and along with the Galaxy Rangers, destroyed Trakeena for good.
Mutants escaped from the future into the year 2001. Four timeforce rangers from the future recruited two rangers from that time. The six rangers defeated the villains. Ransik and Nadira reformed. The villains were taken into the future, and the two rangers from the present were allowed to keep their powers. Frax had been killed by the timeforce rangers.
A year later, Orgs began to appear. And a new team was summoned. Wildforce Rangers. The team fought fiercely against them. Master Org was revealed to be a doctor who killed Cole's biological parents. Zenaku, a Duke Org was freed and attacked them. The rangers removed the curse, turning him back into Merrick. After gaining powers of his own, Merrick and the other rangers, defeated the orgs. Merrick and Zenaku traveled the world seeking to get redemption for their deeds. Toxica and Jindrax, had reformed, and just traveled the world looking for a place to settle down.
Lothor and his gang showed up a year after the Orgs were all gone. Lothor and his forces attacked, and captured all of the ninjas, and destroyed all the ninja academies. But six rangers were formed, and together fought Lothor's forces. In the final battle, Lothor's forces were defeated, but the rangers lost their powers in the fight. Marah and Karpi, Cam's cousins, reformed, and joined the Wind Ninja Academy.