- In Banana-nana-Ninja!: Banana Shop of Horrors, the Big Bad is I.R. Kostlowski, the manager of the PriceCo Supermart who refuses to stop selling bananas for food after hearing the banana ninja's pleas to free them. He engages Baninja in a pencil-to-tiny sword Boss Battle to defend his "best wholesale contract."
- The Big Bad of Broken Saints fits this to a T, down to his identity being unknown until the brilliantly timed closing epigraph of the penultimate chapter: "'Tis the time's plague when madmen lead the blind." — King LEAR
- The Evil Twin from Dusk's Dawn, right down to laughing evilly about evil things, having a Villain Song and proclaiming that "[he's] having so much fun".
- The "Shadowy Figure" to Stinkoman from the 20X6 universe from Homestar Runner. Too bad we never see him...
- In KlayWorld: Off The Table, King Womp is this. When he and his fellow "aliens" (that is, peach-colored clay people instead of blue ones) come upon the Table's Klaymen, his reaction seems neutral... at first.
Womp: (makes his appearance, looks at the Klaymen) Wow. We've got a lot of stuff to improve here. (approaches Klaymen, folds hands behind back)He proceeds to explain that his people journey all around the world, finding other clay civilizations and accepting them into their own... and says that the blue Klaymen are the worst.Womp:... I'm gonna be honest. You guys are probably one of the worst clay men we've ever run into. You're just blobs; there's nothing special about you. But I'm gonna do you a favor. I'm gonna cut you all apart, and we're gonna build you into something better.The whole time, he has a scarily calm, reasonable, deadpan delivery (courtesy of Jason Steele) that sprinkles Nightmare Fuel through the Uncanny Valley.
- Jenna Darabond sparked off all the events from Seasons One and Two in The Most Popular Girls in School.
- In RWBY, Cinder Fall controls all the other major villains, including a terrorist leader and an infamous gangster, in order to advance her own agenda. However, the end of Volume 3 reveals Cinder was actually working for Salem, aka the narrator from the first episode and the first four world of Remnant videos, who takes center stage in Volume 4.
- Sonic for Hire has had a few of these per season.
- Eggman: Season 1, although turned into a Joke Villain and eventually an ally for Sonic.
- Mario: Seasons 2 and 6.
- Tails: Had a Face–Heel Turn for the last two episodes of Season 3 and entirety Season 4. He turned back to normal in Season 5 and got turned into a Butt-Monkey.
- Fox McCloud and Falco Lombardi: The only real major villains Sonic deals with in Season 5. Falco dies and Fox gets his crew back.
- Super Mario Bros. Z's primary Big Bad is Mecha Sonic, though Bowser and Dr. Eggman are a close second.
- TVTome Adventures has a lot of these, however, it is safe to say that Dark Eyes Of Anubis takes the cake. The original programmer of the Forbidden Power (Kagemamoru) and the D-Bug and manipulator of both Voltarius and EXE, he despises TOME and all who play it. Unfortunately, we never get to see him on-screen, as the series was cancelled right before his arc.
- The Forbidden Power counts in TOME.
- In Blank: A Vinylmation Love Story, GC3000 seems to be the leader of the cranes.
- The true antagonist of Hanazuki: Full of Treasures is literally called "the Big Bad".
Big Bad / Web Animation
"The ultimate villain of the story, who's causing the problem the heroes must solve." Note that Big Bad is not a catch-all trope for the biggest and ugliest villain of any given story. The Big Bad is the one who turns out to be behind several other seemingly independent threats.