Kuzco sits down to read fan letters and finds one saying he should change his show. He does, but receives yet another letter. It turns out it is Yzma trying to use the new shows as a method to destroy Kuzco
Kuzco gets detention again. However, knowing the he will enjoy that, Mr. Moleguaco decides to make him join the Overachiever's Club. Meanwhile, Yzma, thinking Kuzco is still in detention, sneaks in there but gets stuck in there when Kronk doesn't recognize her.
Yzma's plan to wipe Kuzco out of the Royal Records backfires when Kronk replaces Kuzco on the records after rescuing the Royal Record Keeper. To repeal this change Kuzco and Yzma team up until the former Emperor-to-be recognizes his chance and turns against her.
When Kuzco is attacked by pumas, Pacha saves him, and Kuzco thinks it is because of his amazing dodging skills. When he brags about it at school, Guaca arranges a puma wrestling match for him, but will he be revealed a phony?
Yzma's latest destroy Kuzco scheme may be the best one yet. After realizing that Kuzco pays more attention to girls then school, she has Kronk trick him into taking a potion which makes girls, including Malina, attracted to him. The girls then begin chasing him everywhere, which is more then Kuzco can deal with.
A man arrives in town that claims to be Kuzco's father. Kuzco, who does not remember his father, immediately thinks he is telling the truth and the two becomes inseparable. However, everyone else is suspicious of the man, and it turns out that he might not be who he says he is.
Malina is stressed out by the preparation for an interview for an internship at the teen magazine Incan Teen. She asks Kronk and Kuzco for help and they decide to teach her how to relax properly.
Yzma's latest scheme to destroy Kuzco backfires and gives Kuzco superpowers, such as flying and x-ray vision. Kuzco then begins to treat his friends badly. Then, Yzma decides to take matters into her own hands, and gets superpowers of her own, and vows to use them to destroy Kuzco.
Kronk enters a contest to win a picnic with his hero Pajama Llama. Kuzco finds the ticket and agrees to give it to Kronk if he becomes his butler. However, Kuzco does not realize that the ticket has an expiration date until it is too late. Now he must find someway to tell Kronk.
The school is holding elections for a new class Vice-President. Mr. Moleguaco tells Kuzco if he runs an election and gets elected, he will pass Government. Kuzco them uses a potion to turn himself in Kronk and try and ruin his reputation.
When Kuzco enters a pep rally, he is disappointed to find out that everyone could care less about him, and they only want to see the school’s mascot, Victor the Llama. In order to gain more attention, he decides to get rid of Victor. Meanwhile, Yzma is getting prepared for her high school reunion, and is having doubts about going because of the kids who made fun of her.
It is prank day at the school, and Kronk is trying to avoid Kuzco so that he doesn't fall into another one of his pranks. However Kuzco comes to school acting extremely scared of a "Moon Beast" that he saw the previous night.
Malina signs up for the "Save A Manatee Program" and is forced to take care of a manatee at her house. When the manatee, named Doyle, expects her to do all the work and messes up her room along with Kuzco, Malina tries to get rid of Doyle.
Kuzco thinks that Llama herding looks easy, so Pacha makes him do it for a day. However, the Llamas end up drinking some of Yzma's potions and are turned into demons. Meanwhile, Kronk, who also had some of the potion, is trying to get a meal at Mudka's, but everyone keeps banning him.
Kuzco decides to made a video about Mr. Moleguaco. He enlists Guaca to help him make the video. Soon the video turns into a mess for Kuzco when he insults Guaca, who thinks Kuzco is his new best friend.
Yzma hires a new foreign exchange student to replace Kronk in her efforts to get rid of Kuzco. Then, he begins to steal of all Kuzco's "popularity". Kuzco and Kronk decide to get rid of Ramon by throwing him into a pit with a wild animal.
A guy from Kuzco's past comes to get revenge on Kuzco for falsely imprisoning him for breaking Kuzco's statue seven years ago.
Kuzco and Pacha's family goes on vacation to the beach. When Kuzco thinks they are taking away his coolness, he starts hanging out with a girl named Yasmine, who just happens to be a young Yzma in disguise.
Kuzco misses all of the room at the palace and is sick of sharing a room with Chaca and Tipo, so he puts them up for sale outside. Kronk comes by and offers to clean the house for them. However, this is a plan by Yzma. She wants Kronk to to find Kuzco's Emperor permit so that she can change it to make her Empress.
It's about Kuzco, a self-centered and spoiled teen who must survive the trials of Incan public school and pass all of his classes so that he can officially become Emperor. His friend Malina keeps his attitude in check, while the evil Yzma (cleverly disguised as Principal Amzy) and her dim-witted sidekick Kronk are out to make sure Kuzco fails.