The Decepticons discovers an old type of Decepticons, the Insecticons. They will ally to destroy the Autobots, who will have to face them in another great battle.

The Decepticons have managed to construct a device that, once successfully tested, will allow them to travel to Cybertron. Later, they use a reprogrammed Bumblebee to make sure the Autobots walk into an ambush.

A battle with the Decepticons leaves Optimus Prime damaged. Several Autobots journey to Cybertron to retrieve a vital part that will help repair him, but the Decepticons take advantage of the situation and launch an attack.

The Constructicons, recently created for the Decepticons, have built a device to give Megatron the powers and skills of his soldiers. All this is to give him the advantage in a challenge he issues to Optimus Prime. And if Optimus loses, he and the Autobots must leave Earth.

Starscream is now in charge of the Decepticons, but all he does is lead them to defeat in battle against the Autobots. But things are about to get much worse when Megatron returns, setting his sights on a new and powerful anti-matter formula.

Natural disasters plague Earth as The Autobots attempt to stop Megatron's plan. A team of Autobots and Spike head for Cybertron to save Sparkplug, but they could be heading straight for a trap.

The Autobots on Cybertron evade capture and work toward finding a way to counteract the effects of the hypno-chips. Meanwhile, Optimus Prime leads the remaining Autobots in a battle to put an end to Megatron's plan.

A meteor is about to crash in the earth and maybe be a good to get a lot of energy, so Optimus Prime order the Dinobots to guard the meteorite to avoid the Decepticons take this energy, but Megatron has a plan to use the Dinobots against Optimus Prime...

Starscream is going to destroy the Earth and take the energy from the explosion to rule the Universe. The Autobots and Decepticons must team up to stop that disaster.

The Earth is returning to the ice age, becuse an evil plan of the Decepticons who have found a new partner...

After capturing Daniel and Arcee and acquiring the Plasma Energy Chamber key, Scorponok and the Decepticons make their way to Cybertron. The Autobots head after them, but Spike and Cerebros stay on Nebulos and come up with a strategy to use a Hive city as a weapon against Scorponok. Meanwhile, the Decepticons and Scorponok begin to threaten Earth and it is up to the Autobots and their allies to stop them.

The Autobots discovers that the Decepticons are trying to make a new weapon with the energy from the center of the Earth, controlled by a gem in a pyramid in Peru. The Autobots needs some backup from their old friend Skyfire.

New allies for the Autobots are built, bringing about Grimlock, Slag and Sludge. However, the Dinobots prove hazardous to the Autobots and must be locked away. But they may be the only hope for the Autobots after a battle with the Decepticons.

The Decepticons raid the Ark after tricking the Autobots with a distraction and Sparkplug gets captured. They use a device called a hypno-chip, created by a human named Dr. Arkeville, on Sparkplug to gain control over him. It is all apart of an evil plan to get a work force to create a new space bridge and bring Cybertron to Earth.

While much has changed and there has been a peaceful lull lately, the Decepticons are happy to get back to basics. Soon, Autobot City is a mess and the Plasma Energy Chamber key is stolen. The fight moves to Cybertron and in front of the soon activated the Plasma Energy Chamber, no less. An unexpected reaction from it, though, leaves a number of Transformers on both sides (plus Spike and Daniel) on Nebulos. Greater fighting awaits there, as machine-hating Nebulons seek to overthrow the evil Lord Zarak and the Hive. Getting back home is, of course, on hold for the recent arrivals to Nebulos. However, the Hive appears unstoppable and only something truly radical may work against them.

Daniel and four Nebulans join with five Autobots to battle the Hive, but the Hive decide to do something similar with a group of Decepticons. Meanwhile, Optimus Prime goes to Vector Sigma to find out the whereabouts of the missing Autobots and encounters an old face, learning the answer and what must be done.

Octane is on the run from The Decepticons. He is forced to hide in a crypt, where the ghost of Starscream lies in wait and then takes over Cyclonus.

Proving to be a danger even to their own allies, the Dinobots are sent away to train on a recently discovered island in the hopes that they will learn how to effectively work together. The island, however, is far from ordinary as it is populated by dinosaurs. Meanwhile, the Decepticons make advances toward the island so they can acquire it's natural resources.

The Decepticons' tampering on the island creates openings to other times, allowing all sorts of things from various times to arrive in the present. The Autobots race to reverse this before it's too late and to stop the Decepticon plot. But in the end, their best hope may be the Dinobots.

Failing to cause a divide between the Decepticons and Insecticons, Mirage's mind suddenly becomes enslaved and he is used by them in a plot against the Autobots.

The Decepticons send the recently stolen Nightbird on a mission to steal an informative chip from the Autobots.

The Decepticons plans to take energy from the center of the sun using a circuit from one of their enemies, Gears. The Autobots must defeat the Decepticons and rescue their compatriot.

The Decepticon ship that shot down the Ark has been found and Megatron manages to find a component containing great power. With this power a danger to everyone, Perceptor, Bumblebee and Brawn shrink down and journey through Megatron's body to get it away from the Decepticon leader.

While everyone continues to rejoice in their victory, unknown assailants capture Ultra Magnus, Kup and Spike. After being told by a alien, a group of Autobots suspect the Decepticons are the culprits. But when they arrive at Charr, they find the Decepticons in no shape to pull off a kidnapping, meaning another is responsible.

The Autobots make it out of Charr, but Rodimus is down and looks out. In reality, he has made a trip to the Matrix and learns the Quintessons are behind the kidnapping. After Rodimus is revived, a rescue mission is soon underway. Also, Scourge and Cyclonus finally track down a battle hungry Galvatron.