Donatello feels intellectually inferior to the professor while the Triceratons attack and try to obtain the black hole pieces.
- Artistic License – Biology: The Virus creatures don't exhibit many virus-like behaviors.
- The Bad Guy Wins: The Triceratons steal the two BHG pieces and heavily damage the Ulixes.
- Bizarre Alien Biology: the Skeevix "Virus" has a three-stage life-cycle similar to insects. They start off as a mass of fast-moving yellow worms which soon enter a pupal stage, forming cocoons wherein they rapidly grow into bipedal gremlin-like creatures.
- Droste Image: The image of Chris Bradford holding the "Chris Bradford's Honey-Nut Extra Energy Trail Mix Treat" box goes on and on.
- Earth-Shattering Kaboom: When the Ulixes manages to dodge the planet killer missiles sent in their direction, the missiles instead hit a nearby moon, blowing it to smithereens and creating an instant Asteroid Thicket.
- Even Evil Has Standards: When Mozar tells his soldiers to release the Skeevix Virus, one of them objects, stating that it is outlawed in over two thousand star systems. Mozar is really determined to destroy the turtles and get the black hole generator pieces though and disregards this.
- Family-Unfriendly Death: Most of the Skeevix are reduced to green splatters onscreen, with one being broken down and crudely turned into pizza while still alive when it's stuffed into the Think-a-Food Machine, reducing it to a scattering of body parts that dies in sight.
- Gory Discretion Shot: Fugitoid vaporizing the Triceraton soldier with his Fusion Cannon is given this treatment.
- Griping About Gremlins: The Skeevix adult form, which are small humanoid creatures which wreck spaceships, Casey and Mikey even call them "space gremlins".
- Living Weapon: The Skeevix Virus is some sort of biological weapon so heinous its use has been widely banned across the universe.
- Microwave the Dog: Casey manages to trap one of the Skeevix "Gremlins" in the Think-a-Food Machine and frantically thinks of pizza, resulting in the creature's messy demise.
- MST: The Turtles & Casey Jones watch an episode of a Show Within a Show called "Chris Branford & His 2 Ruff Crew" just to laugh at how stupid it is. It's whole purpose was to make Chris Branford into a Character Shill for his own brand name cereal.
- No-Sell: The Triceraton soldier tasked with eliminating the Turtles doesn't even flinch when Raph and Casey simultaneously strike him with flying kicks.
- Off with His Head!: Fugitoid gets decapitated by flying debris when the viral warhead breaches the Ulixes' hull.
- Shout-Out: When the Triceratons' ships appear out of nowhere, their materialization is similar to the Zub cube enemies from Gradius.
- Also, Mikey calls the virus things Gremlins.
- The Skeevix egg sacs/cocoons greatly resemble Xenomorph eggs.
- The Raptor fighters bombing the nebula to flush out the Ulixes is reminiscent of Star Wars: The Empire Strikes Back.
- This Cannot Be!: Mozar is incredulous when the Turtles manage to survive his virus attack.
