Optimus is the popular choice for the new permanent Magnus, but Sentinel is willing to do anything to keep his power. Sari, along with being taught by Arcee, is put in Autoboot Training under Kup. Sentinel breaks up the team, and when Strika and her gang start raiding Energon farms, Sentinel promises Megatron better treatment if he gives intel to stop them, but when word of this leaks to the public, he sets up a public trial/execution that leads to Megatron escapign.
Turf War would've been the introduction of Devastator, who we get a glimpse of.
An episode we haven't heard of, "This Is Why I Hate Organics" involving Rattletrap getting stuck on Earth, surrounded by disgusting organics. Soon he becomes a target of both factions
More Predacons would've been added.
Megatron becomes unstable from his tiriple changer upgrade.
Process of Elimination: Bumblebee investigates a series of attacks on himself, Bulkhead, Sentinel, and Ironhide. Suspecting either Shockwave of Waspinator, things take a mysterious turn when they are attacked as well.
Finale: Autobot, Decepticon, Predacon, and Dinobot try to stop Megatron from reformatting Earth into a New Cybertron, with lots of casulties. While Powermaster Optimus fights him, Sari discovers a deeper connection between herself and "Someone familiar" that holds the key to saving Earth and Cybertron.