* BrokenBase: The fans of TotallySpies didn't seem to like the "younger" group of spies.
* {{Headscratchers}}: In 2 of the MissingEpisodes, someone (Trudi and Tami to be exact) [[BrainwashedAndCrazy are turned into spy-sassins]] by a gadget the Spiez had lying around that was issued by WOOHP...''why'' would you have something like that and in Trudi's case, ''why'' would they bring it home with them?
* MissingEpisode: Most of the second season and 3 early episodes have practically vanished and good luck finding them on the Internet.
* LesYay: In "Operation Yeti Bear", Megan seems to be quite enamored with athletic prodigy Tara Prefontaine...
-->'''Megan:''' Wow! That is one fantastic girl!
** Megan and Tami [[http://www.youtube.com/watch?v=un9ASEA2frM occasionally engage in]] FoeYay as well.
* ScrewedByTheNetwork: After about a month, Creator/CartoonNetwork moved the show from the afternoon to an uncomfortable early-morning slot before pulling it off the air entirely.