第 3 季 共 13 集
播出时间：1998年10月26日
第 1 集 Optimal Situation
播出时间：1998年10月26日
Realizing that without the Maximals she would never have existed, Blackarachnia actives the Ark's defenses and forces Megatron out of the ship. The Maximals start initial repairs and the time storm subsides a bit, but Optimus Prime's life still hangs in the balance - it could swing either way. Megatron rallies his troops to make sure it swings in his favor.
第 2 集 Deep Metal
播出时间：1998年11月2日
The Maximal Depthcharge flies into a temporal disruption while out searching for Protoform X, and is sent back in time to the Beast Wars. He and Rampage has some unfinished business, and neither cares if anything gets in their way.
第 3 集 Changing of the Guard
播出时间：1998年11月9日
Unable to jury-rig defenses using parts from the Ark, the Maximals send Rattrap down under water in a small capsule to retrieve Sentinel from wreckage of the Axalon. But Megatron wants to lay his hands on it too, and Rampage and Depthcharge fighting it out in the area, nobody's safe.
第 4 集 Cutting Edge
播出时间：1998年11月16日
Two young cave-humans are separated from their parents by an attack from Megatron's new transmetal enhanced raptor clones. Optimus chases off the raptors and charges Blackarachnia and Cheetor with escorting the kids back to their homes.
第 5 集 Feral Scream (1)
播出时间：1999年2月1日
Using a newly discovered blank protoform, and his part of Rampage's spark, Megatron creates a clone of Dinobot incorporating his enhanced transmetal 2 technology. Discovering the experiment, Cheetor and Depthcharge try to destroy the equipment, but it is activated during the fight and blows up - the cat getting caught in the blast.
第 6 集 Feral Scream (2)
播出时间：1999年2月8日
Afraid of what he's becoming and unable to control it, Cheetor tries to hide his temporary transmetal 2 transformation, leading the others to believe a mutant beast has destroyed him.
第 7 集 Proving Grounds
播出时间：1999年2月15日
Blackarachnia is getting tired of the distrust, and when she overhears Optimus and Rhinox discussing removing her Predacon programming, and the fact that it might leave her mindless, she rushes out on her own... straight into the claws of the waiting Dinobot.
第 8 集 Go with the Flow
播出时间：1999年2月19日
Megatron is building a disruptor ray to scramble the Maximals' circuits, but needs an organic lifeform who won't be affected by it to finish putting the shielding into place. He has one of the cave-human children kidnapped, and it's up to Rattrap and Depthcharge to save her.
第 9 集 Crossing the Rubicon
播出时间：1999年2月23日
Blackarachnia attempts to use the transmetal driver on herself, but all it accomplishes is to disrupt her Predacon programming, making it deteriorate quickly to the point that it will make her mindless unless it is removed.
第 10 集 Master Blaster
播出时间：1999年3月16日
Optimus is implanted with one of Tarantulas' bugs, this one letting Quickstrike remote control him. After securing the Maximal base, Megatron goes after the original Megatron's spark, hoping it will give him equal power to Optimal Optimus.
第 11 集 Other Victories
播出时间：1999年5月6日
The aliens, the Vok, send Tigerhawk to Earth to stop Megatron's meddling with time. He crashes into the Predacon base, but the Predacons have no intention of takeing this lying down... especially Tarantulas.
第 12 集 Nemesis (1)
播出时间：1999年5月7日
While Inferno, Quickstrike and Waspinator go looking for a new ""colony"", Megatron discovers one of Tarantulas' secret projects - the reactivation of the gigantic Decepticon warship that shot down the Ark before it crashed into the sea.
第 13 集 Nemesis (2)
播出时间：1999年5月8日
Destruction rains down on the Maximals as Megatron unleashes the weapons of the Nemesis. Optimus orders a desperate attempt at getting the Ark airborne.
