* If the Chameleon could turn into a fly, why didn't he just turn into one & fly out of his prison cell when he wanted to escape in his first appearance? At least in later appearances they had the sense to confiscate his transforming cybersuit.
* "Operation: Happy Birthday" has a flashback for Kitty, showing one of her birthdays over the years. The magician is a mouse who she quickly devours alive with everyone gasping in shock. Makes you wonder why she doesn't see Snaptrap as a ten course meal.
** Possibly due to either not acting on her cat instincts anymore (she ''was'' twelve the first time), or having standards in food.
* When Dudley and Kitty wear sunglasses, how do they stay on? Their ears are at the tops of their heads.
** In Dudley's case his nose keeps them on, in Kitty's case it's the RuleOfCool.
* In "Doom-Mates" Kitty is killed eight times in a death trap, but after getting blown up in the same death trap ''twice'' the Chameleon is still alive.
** Because it was designed to kill Kitty, not the Chameleon. Also, RuleOfFunny.
* In "Monkey Business", special mention is made of the fact that the Hunky Monkeys have opposable thumbs and talk about others don't. But everyone in the TUFF Puppy universe have opposable thumbs, it's how they make fists, hold things, and wield laser guns.
* How could someone get spectacular gifts from the city for stopping Snaptrap from licking wallets and stopping the Chameleon from drowning when Dudley and Kitty stop worse things on a daily basis?
* Why are some anthropormorphic animals closer to real life size than others (i.e: "Agent Rodenski" compared to Snaptrap)?
* How is it that Kitty and Keswick do not know how to pronounce "apocalypse" (they pronounce it apo-claypse), but ''Dudley'' does?
* Why is it that the second Birdbrain's mutant booby comes into existence, he's not endangered anymore since there are two of them? Last I checked, a thousand of a species left still qualifies as endangered. No one ever touches upon this ''once''.
* Here's one that's been bothering me since I first saw it. In the episode "Snapnapped," Kitty Katswell and Dudley Puppy are crushed by two enclosed spiked walls for failing to disable them in time. However, once the walls roll back, it reveals that not only did Kitty and Dudley survive being crushed and impaled, but they don't even seem to be hurt by it at all, just slightly dazed for a few moments before snapping out of it and pressing on. They don't even appear to have any sort of internal anatomy, judging by the holes in their bodies. And the next time we see them, their bodies are good as new. Now, I know that this is largely due to RuleOfFunny Slapstick CartoonPhysics. But here's the thing...This is designed as a security system to keep intruders out. But this incident basically confirms that within the T.U.F.F. Puppy universe, peoples' bodies are cartoonish enough to survive being crushed and impaled without even being slightly hurt. At worst, it would just mildly and very shortly inconvenience them. So this is where the part that confuses me comes in - Wouldn't that make a security system like this utterly useless? Logically, wouldn't the potential trespassers also be cartoony enough to go through the same experience and come out like this? As such, what is even the point of a security system like this?