The third season began on March 14, 2009 with the three-part premiere, Transwarped, and ended on May 23, 2009. This season following the events of Transwarped focused on the Autobots' attempt to reach Cybertron in order to warn the Autobot High Council of Shockwave, who has been masquerading as Autobot Intelligence Officer Longarm Prime. Meanwhile, Megatron, Starscream, Shockwave (who replaces Blitzwing as a main character), and Lugnut plan to use the colossal Autobot Omega Supreme for constructing clones of him (dubbed as Lugnut Supremes, as they appear similar to Lugnut).

This season began merely two whole weeks after the first season had ended, on April 19, 2008, with the airing of The Elite Guard, and ended on July 5, 2008, with the two-parter, A Bridge Too Close. The season revolved mainly around the Autobots in the aftermath of Megatron's return, trying to restore the city and their image. Meanwhile, Megatron, Lugnut, and Blitzwing have captured Prof. Sumdac in order to build a Space Bridge, hoping to use it to conquer a weakened Cybertron from within. A sub-plot also focuses on Sari as she searches for her father, while learning that there is no record of her existence of any means. Also, Blackarachnia (originally Elita One) has been reduced to a minor recurring character, only appearing in one episode of the entire season (Black Friday).

　　USA宣布续订《Suits》第三季16集。考虑到该剧第二季出色的收视率表现（夏季最后一集650万观众），USA的决定在意料之中。　　11集2014年3月6日回歸。

　　Life goes on after the tragic deaths of Hank and Dean. Meanwhile, the Monarch deals with life "inside" but you can't keep a good criminal mastermind down. But will King Gorilla prove to be his greatest ally, or his worst betrayer?

　　The truths and half-truths about Dr. Venture's former arch nemeses are finally revealed.

　　Join the Ventures-and pretty much everyone they've ever crossed paths with-as they rocket to the Gargantua-2 space station for an epic adventure that will change the Ventureverse as we know it.

　　The past is haunting the Venture building, literally. Can a good exorcism fix everything? Meanwhile, Hank is pressured by goons to break off his relationship with their mobster boss' daughter.

　　The warped misadventures of a former boy genius turned washed-up, middle-aged mad scientist Dr. Rusty Venture; his moronic teenage sons; their maniac bodyguard; and the Doctor's arch-nemeses, incompetent super villain The Monarch and his masculine paramour, Dr. Girlfriend. Written by Jojo Mac

　　Questions are answered and truths are revealed.