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.

It is Malina's birthday, and she is having a extravagant ceremony called a Bloom Ball to celebrate. Kronk is going to give her a time travel watch, while Kuzco is going to give her pictures of him. Kronk warns Kuzco to not take over and make the party all about him, but that proves useless as he ends up ruining the party. In order to make things right, Kuzco decides to use Kronk's time-travel watch to go back in time and make things right. Meanwhile, Yzma has put a fly potion in the punch so Kuzco will transform into a fly and she can squash him.

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.

Kuzco struggles with a school fundraiser of having to wash carts for 100 KuzCoins. Then, Yzma turns him into an Elephant making matters worse!

After being introduced to fortune cookies, Kuzco starts to believe them and begins to follow everything they say. Yzma tries to trick Kuzco into turning over the kingdom to her by placing fake fortunes into fortune cookies; one of which that states that if he doesn't turn over the kingdom by 5:00 PM he will turn into a hairless sloth.

Following Yzma's latest fail to destroy Kuzco scheme, Kronk convinces Kuzco to finally stand up to Yzma and get rid of her. Kuzco and Guaca team up to remove everything from her lab, which results in a potion battle between Kuzco and Yzma. Meanwhile, Yzma has promised to take Kronk to Pajama Llama on Ice if he tells her who gave Kuzco the idea to destroy her, which results in Kronk trying to figure out what to do.

Everybody at school gets their grades. At lunch, Kuzco, Kronk, and Malina share there grades. Malina finds out that she got an A – and freaks out. Then, because of that she gets kicked off of the cheerleading squad. Malina starts to have an identity crisis and decides to act like school baddie Roxy. Then, Kuzco and Kronk drink a magic potion that turns them into girls in order to get their friend back.

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.

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.

When Kuzco complains about going to Kuzco Academy, Mr. Purutu suggests that he does home schooling. Seeing this as his greatest opportunity, he agrees to it. Yzma realizes that she can't get rid of him in he is home schooled, so she decides to use Malina as the bait to get him back by making Ramon her partner on the school trip. Chicha then starts teaching him 24-7, which forces him to want to go back to school, and so he can stop Malina from being with Ramon.

Kuzco wants to buy a new bike that is really expensive, but he finds out that he can't dip into the Royal Funds unless he's sick, so he decides to fake sick by coloring orange spots on his face with Chaca's orange crayon.

When Kuzco's attempts to earn money for the cartcycle that he wants to buy fail miserably, he turns to an old legend about magical creatures that are supposed to hand over their gold to you if you catch them.

While waiting to be seated at a restaurant, Kuzco discovers Malina's competitive side. A waiter fills them in on a potato growing contest. Malina enters the contest, but can not grow a potato, so Kuzco offers her some of Yzma's super grow potion. Meanwhile, Yzma and Kronk try to think of new ways the destroy Kuzco, including bringing a statue of him to life.

Yzma is to be interviewed by Empress Magazine, and will also give a tour of the palace. However, she must somehow distract everyone. She \"invents\" the TV and has Kronk become a TV Superstar to have people become couch potatoes while she does the interview. Meanwhile, Kuzco gets jealous of Kronk getting all the attention.

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.

When a new card game becomes the latest craze, Kuzco rushes to get his own set of cards. He then tries to rip off Kronk to get a powerful card, but it turns out that it was he who was ripped off. Now Kuzco will do anything to get the card back. Yzma decides to try and use the card to trade the rights to the throne. Meanwhile, Malina and Yata, who believe they are being mature by not being caught up in the latest fads, start buying all the coolest accessories.

Giftmas is just around the corner and everyone is getting ready for the holiday. Malina and Yata go shopping to find Kuzco some kind of gift he might actually like, while Pacha tells Chaca and Tipo a bedtime story about Papa Santos. However, Kuzco tells them that he does not exist, which fuels Tipo to find proof that he does. Meanwhile, Yzma’s fruitcake plan fails and she comes up with another way to get rid of Kuzco. She makes a game show about him (which he ironically comes in second place) in order for him to win a trip to a ski resort on Mount Reeve. However, the mountain does not have a resort and Kuzco and Kronk end up frozen. Then some gnomes show up and take the two of them to Papa Santos’ ice palace. Kuzco finally believes in him and finds out that he is on the naughty list, which is why his wishes never come true. He then sets out to correct all the wrong things he has done in order to get his wish to be Emperor. Meanwhile, Malina still struggles on what to get Kuzco.

Project Poncho is coming to Kuzco Academy and every student must make a poncho for the contest for their assignment. Kuzco desperately wants to win so he can take Malina on a \"romantic getaway\" to Lima, so he tries to steal other people's ponchos. After seeing Guaca's poncho, Kuzco convinces him to let him take it. Meanwhile, Yzma also enters the contest, and asks for the help of two silk worms to help her. However, when she refuses to pay, they decide to make a fool out of her.

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.

Yzma’s science class is dissecting frogs, so she turns Kuzco into one so he can be dissected! Instead, he becomes a “hero” known as the Red-Eyed Tree Frog Man.

Kuzco resorts to cheating and stealing Yzma's "inventions" during a required invention fair. He steals her Woodbot and it begins rampaging around the kingdom and it heads towards the school!

Kuzco and his class visit the ruins of Micchu Pachu, which is actually an amusement park. Kuzco is scared but doesn't show, he wants to go home but if he does he will fail. However, an anteater skeleton appears and goes after everyone.

For Kuzclub Week, everybody has to join a club for a week or will fail. Kuzco joins the Jr. Chipmunks hoping for an easy time. Yzma's nephews, Zim and Zam, try to make sure Kuzco doesn't get a badge so he can't pass.

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.

A guy from Kuzco's past comes to get revenge on Kuzco for falsely imprisoning him for breaking Kuzco's statue seven years ago.