These are what we call the 'YMMV items.' Things that some people find in this work. We call them 'your mileage might vary' because not everyone sees these things in the same way. This starts discussions in the trope lists, a thing we don't want. Please use the discussion page if you'd like to discuss any of these items.
Follow the Leader: It's hard not to notice that the film is aping the Shrek formula to a T, except of course the strong anti-Disney overtones of the first Shrek film.
Girl Show Ghetto: The original story treatment of Chicken Little had a female protagonist, but Michael Eisner suggested a movie about a male Chicken Little would appeal to more people. The final film became a black sheep of the Disney Animated Canon, though it seems hard to tell whether or not the original plan would have fared better.
The truth about the "invasion" being revealed; see Voice of the Legion on the main page.
Memetic Mutation: Think "Numa Numa" and recall the early teaser commercials with Chicken Little dancing to notorious earworm "Dragostea din tei". Then have it come back to haunt you when you hear "Down" by Jay Sean, a Suspiciously Similar Song version of the Numa Numa song whose lyrics specifically allude to the story of Chicken Little.
What The Hell, Casting Agency?: The voice actors of Chicken, Abby and Runt don't even attempt to sound like kids, though the film never is clear on whether they're supposed to be young children or teenagers. And what was the point of casting Patrick Stewart for barely over a minute of dialogue?
According to Word Of God, Chicken Little (at least) is a "teenager" around 12-13 years old. Not as bad as some might have thought, but Vocal Dissonance nonetheless.