Zoey begins life at PCA. She is nervous about the situation at first, but gets more comfortable when she meets her new friends; Dana, Quinn, Chase,Nicole, Logan, Michael. The girls and boys try to adjust to girls being allowed to attend PCA for the first time.

Zoey's roommates, Nicole and Dana, constantly fight. So then, she decides to move in with the girl named, Quinn. After Zoey moves in, she thinks that it wasn't a good idea that she moved. So then, she wants to move back in with Nicole and Dana. But when she sees that Nicole and Dana are enjoying themselves after Zoey moves, she decides just to stay with Quinn, since she doesn't want to hurt her feelings. Meanwhile, Logan is pressuring Chase into keeping Zoey away from her roommates so Chase can spend more time with her.

When a school bully forces Dustin to do his homework for him, Zoey confronts the bully in public, embarrassing Dustin in the process and further enraging the bully. So Dustin decided that Zoey is babying him too much. He goes to Chase and Michael for advice and tries to tell Zoey that he can defend himself by his own. Meanwhile, Zoey, Nicole, Dana, Chase, and Michael try to hide their dog, Elvis away from their dorm advisor, since it's against school rules for having pets on campus. Logan did not appear in this episode.

Prank Week, a PCA tradition where returning students prank new ones, has begun. The boys prank the girls multiple times, so the girls decide to prank the boys back (which violates tradition because new students are not supposed to do anything about it except getting pranked). The boys were supposed to keep a statue of the founder of PCA clean, so Zoey comes up with a prank and the girls put women's clothes on it. But when the son of PCA's founder sees it, he is very angry, and tells the girls that its going to be their last semester at PCA and that no more girls are going to PCA. So then after all the sadness from the girls, Zoey tries to figure out a way of how the girls can stay at PCA.

During this episode, Mr. Bender has invited a special friend of his to come and show the class a new scooter called "Jet X". He has asked the whole class to get into groups and organize group commercials. He said the winning commercial will get aired on TV. 100 times. Chase, Michael, & Logan form a group, which Logan gets his dad's special equipment for his commercial and a celebrity. While Zoey, Dana, & Nicole begin fighting over the video, Zoey puts all their ideas together.

Quinn has a crush on a boy named Mark, but is too afraid to ask him out. She asks Zoey to ask him out for her, resulting in Quinn thinking she's going out with Mark. Zoey, worried that Quinn will find out that she's not really going out with Mark, asks Chase to go on a double date with her, Mark,and Quinn. Meanwhile, Dustin takes care of Elvis while the other boys are busy, even though he's afraid of animals.

When Nicole pays for a backpack she messed up at the bookstore, she is broke and calling the backpack stupid. But when Zoey re-designed the backpack using her ideas, Nicole likes it and keeps it. Later on, Zoey's backpack idea is stolen from a girl named, Stacy and she makes a lot of money. So then Zoey and the gang try to seek revenge on her.

In this episode the gang is worn out from always running in gym class. Nicole keeps throwing up and is tired of it. To solve this, they decide to put together a disc golf team to keep them from doing gym class. Also, Michael is not happy with his weight due to him being addicted to chips, so he gets Quinn to solve his problem

The school dance committee implements an experimental personality-based partner selection process. So, Chase tries to get matched up with Zoey, and so he does whatever it takes to get matched up with her. But of course, his plan backfires when another guy gets matched up with her as well as him. Zoey must pick between Chase and Glen, the other guy. Chase is upset and tries to get Zoey to pick him.

It's the end of the semester and Zoey and her friends are excited for PCA's annual beach party but... they end up going to the wrong beach unsupervised. It turns out that they aren't at Mystic Beach (where the big PCA party is) and have no way of getting back. But, they throw their own party and Quinn works her magic and finds a way to go back home.

It's the second semester at P.C.A. Dana left for the European Exchange Program so, Zoey and Nicole need a new roommate. When they come back to their dorm a gothy, freaky girl named Lola, who in the episode drinks raw eggs and tries to pierce herself. is in their room and learns that Lola is their new roommate. Meanwhile, Michael and Chase have to deal with Logan, who goes completely overboard on the entertainment system for their new dorm room.

After a fire burns down Sushi Rox, Zoey and the gang hold a people auction to raise money in order to rebuild it. Chase and Michael get auctioned to the sushi-crazy gym teacher. Zoey, Lola, and Nicole become Logan's personal cheerleaders, and they are told to "cheer his awesomeness", as in cheer for everything he does. His plan backfires when the girls decide to cheer for everything he does.

Quinn's pet alpaca, Otis, is depressed because he misses her, leaving her feeling depressed as well. The girls then decide to try and cheer her up by throwing an alpaca-themed party. However, this only made her miss Otis even more and she left PCA to meet with him, which could get her suspended as it is the middle of the semester. Meanwhile, the guys make a bet to see who can go the longest without saying anything containing the letter 'S' and the person who loses has to run across the campus wearing nothing but a bikini top, a hula skirt, and a flashing red helmet.

A shocking ending from "Surprise" leads to yet another plot twist. Chase's girlfriend, Rebecca, seems really sweet, until she tells Zoey to stay away from Chase. After Chase learns about this, he must make a decision: Rebecca or Zoey. Meanwhile, Quinn is helping Logan with his free throws in basketball. Also, a new girl named Stacey Dillson gets her cotton swab dream house wrecked by Chase.

A new "hot" Dean fills in for Dean Rivers because Dustin,Quinn, and Dustin's friends hit Dean Rivers with a model airplane by mistake.. Meanwhile, the girls' Dorm Advisor Coco has just been dumped by her boyfriend, Carl. Zoey and her friends set up Dean Taylor and Coco on a date at Sushi Rox because Coco keeps complaining about Carl.

For the first time in Zoey 101, Zoey Brooks struggles with a class, Chemistry, where she scores a "C" on a test. She is given a new tutor; to her surprise, her tutor is Logan who happens to be one of the best pupils. Zoey starts learning Chemistry with Logan behind her friends' backs. All of her friends become suspicious, especially Chase. Chase tries to find out why, so Logan lies and says that Zoey is going out with him.

This time on Zoey 101, the Great Vince Blake appears to be the ladies' man, the best school athlete and the savior of the football team. He helped PCA advance to the state championships. Little do people know though, he is in fact a cheater as Chase catches him taking pictures of a history test with his cell phone. Chase must choose not to tell and let Vince cheat more or make PCA lose its biggest football game. Logan, Michael, and the football team convince him not to tell, but Zoey thinks he should. Meanwhile, Zoey, Lola, Quinn, and Mark put healthy snacks, called Moonbars, to try and persuade the students to stop eating junk food.