The main antagonists of Season 2 (The Invasion of the Rajita) and are old enemies of the Moon Kingdom/Sailor Senshi.
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In General
- Knight of Cerebus: In a way, their existence marks a game-changer to the YYGDM franchise. Their invasion on Earth sets the stone for epic battles and wars.
- Lizard Folk: They are a race of reptilian aliens, both humanoid and animalistic like.
Original Members
Kaiser Ghidorah
See YuYuGiDigiMoon: Season Trilogy Villains for his page.
The Four Generals
- Expies: To the Shitennou of Sailor Moon.
Kuiiza (OC)note
Voiced by: Dee Bradley Baker
- The Dragon: To Kaiser Ghidorah.
- Mad Scientist: Shows off a lot of cruel experiments.
Kujiko (OC)note
Voiced by: Clancy Brown
- The Brute: Focuses on brute force.
Nagah (OC)note
Voiced by: Grey DeLisle
- Dark Chick: The only female of the generals.
- The Dragon: To Gamera in Season 3 (Dawn of Chaos).
- Dragon Ascendant: Will become the new leader of a reformed Rajita after Dawn of Chaos is over.
- Heel–Face Turn: Later on in Dawn of Chaos after seeing what Gamera become thanks to Paradais.
Morpheous (OC)note
Voiced by: Phil LaMarr
- Heel–Face Turn: After his experiences with the Duelists.
- Official Couple: With Serenity Wheeler.
The Great Leviathan
Voiced by:
- Greater-Scope Villain: It's the Rajita's god and where the Orichalcos is alien origin.
Neo Rajita
The main antagonists of the Sailor Senshi's side in Season 3 entitled, Dawn of Chaos.
The successor of the Rajita. These forces are ones abandoned by Ghidorah for being useless. Nagah raises Ghidorah's successor, Gamera, who would lead the faction. Their main base is hidden in the Digital World, that they improve their experiments for the aliens to have Digimon DNA. Somehow, Gamera forge an alliance with Sailor Charon and The Prophet.
Gamera
See YuYuGiDigiMoon: Season Trilogy Villains for his page.
Melancholia (OC) note
Voiced by: Tony Oliver
- Animal Motifs: Has the DNA of Myotismon.
- Expy: Of Ulquiorra.
- Heel–Face Turn: Maybe, after defeated by Sedna.
- The Stoic
Vipris (OC) note
Voiced by: Michael Sinterniklaas
- Expy: Of Nnoitra Jiruga.
Geso (OC)
Blitzkrieg (OC) note
Voiced by: David Vincent
- Animal Motifs: Has the DNA of Dinotigermon.
- Expy: Of Grimmjow.
- Heel–Face Turn: Later on.
- The Rival: To Sailor Varuna.
Toad (OC)
Voiced by: Ben Diskin
- Animal Motifs: Has the DNA of Parasimon.
- Expy: Of Szayel Aporro Granz.
Babbi (OC) note
Voiced by: Paul St. Peter
- Animal Motifs: Has the DNA of Gorillamon.
- The Brute
- Expy: Of Yammy.
Kitoss & Wolk (OC)
Kitoss voiced by: Colleen O'Shaughnessey
Wolk voiced by: Wendee Lee
- Animal Motifs: Has the DNA of SkullScorpiomon.
- Expies: Of Loly & Menoly, but Kitoss is more evil than Loly.
- Hate Sink: Kitoss is detestable despite being a minor character.
- Heel–Face Turn: Wolk.
