The entire scene where they arrive at the sky castle, and the air makes their voices really high-pitched.
The dance battle. 'The Litterbox', to which Puss basically says, 'Oh, you did not!'
The Masked Cat's wordless reaction to Puss' butt scoot in response is priceless.
Near the start of the movie, there's an expository moment where a man uses his body tattoos to show Puss the legend of the Golden Egg. We soon get this absolute gem.
Man: Do you want to see the golden eggs? -Reaches for his pants.-
How Kitty keeps bringing up the "You hit me on the head with a guitar!" thing.
Humpty in the gold suit. Also the way they have to keep rolling him around to get him places.
Dancing "The Litterbox."
The cat that keeps going "ooooh!" at appropriate moments.
When we see Humpty throwing birdseed for the vultures on Puss in a flashback.
Heck, the whole "I was there the whole time" flashback, which shows him present for many of the film's events, for no discernible reason.
Holy Frijoles.
The cat your cat could smell like commercial.
"Hi little plant!"
The flashbacks to Puss' childhood. He spends most of them being absolutely quiet, only nodding or shaking his head. The finally the cute little cat speaks... with Antonio Banderas' deep voice.
That turned from cute...to funny.
"You snap me?!?"
Also not long afterwards, Puss' reaction to Jack's gunshot. He's completely burred up.
Puss: "no hablo ingles"
The stare-down between Puss and the Diablos in the short film.