Sookie begs Lorelai and Luke to set a date for their wedding. Feeling a little flustered with the encounter with Rory couple days earlier, Lorelai tells Luke she doesn't want to set a date without talking to Rory and hopefully get "back together" and resolve their differences.

 

Lorelai needs Richard's help with her insurance after a small fire at the Dragonfly Inn and uses the occasion to talk to him about the fact that he didn't manage to get Rory back into Yale. Although he doesn't appreciate Lorelai's reprimand, Richard has to admit that Rory is not where she should be. Meanwhile, Rory organizes a fabulous DAR party for Emily but the evening doesn't turn out so well when Richard confronts Mitchum Huntzberger, Logan's father, about his opinion on Rory's journalistic talents. At the same time, Emily has an even uglier confrontation with Logan's mother about Rory and Logan's relationship. In addition, Miss Patty's 28th annual dance recital is on Thursday night, and Lorelai decides that Luke should still participate in activities he likes, such as camping and fishing, instead of going to things he hates (like dance recitals) with Lorelai. After Lorelai tells him to go camping, Luke feels banished. Paris gets her first job after her parents cut off her money.

Rory is pleasantly surprised when her old flame Jess appears at her grandparents’ house and reveals an amazing development in his life. Rory agrees to go to dinner with Jess, and when Logan unexpectedly joins them, an ugly confrontation develops, leaving both Rory and Logan to face the choices they have made. Emily is concerned about Rory's sudden evasiveness and tries to exert some parental discipline. Meanwhile, Luke agrees to sponsor a local girls’ soccer team and Lorelai channels all her concerns about Rory into caring for her dog, Paul Anka.

 

Luke becomes jealous when Lorelai receives a phone call from Christopher. Luke makes a big deal about being honest with each other, but when he discovers that he has a daughter he never knew about, he is unsure of how to tell Lorelai. After Rory moves into Lane's apartment, re-enrolls in Yale, and scores herself a job, Rory and Lorelai take the first steps towards reconciliation

After a long absence, Christopher reappears in Lorelai and Rory's lives. Luke struggles with what the new person in his life will mean to him and his relationship with Lorelai. Lorelai and Rory enjoy their first Thanskgiving at the Dragonfly Inn, and Rory receives surprising news about Logan. Meanwhile, on the eve of an important gig for the band, Lane has to deal with Zach's jealousy over a song Brian wrote about her.

Feeling that he has missed too much and wants to get to know his newly discovered daughter April, Luke goes to have a talk with her mother, his former girlfriend Anna Nardini. Meanwhile, Lorelai sets a date for the wedding after finding the perfect dress, but she is worried by the nagging feeling that something is about to go wrong. Back at Yale, Rory happily moves into a dingy off-campus apartment with Paris and Doyle, and tries to avoid running into Logan. However, when Logan shows up at her apartment and declares his love for her, Rory breaks down.

Luke is showing signs that he hasn't slept much. Lorelai wakes up so early that she gets a lot done. Kirk is organizing the Winter Carnival. Lorelai and Rory volunteer to man a carnival booth called "The Amazing Doggy Sawmi." At the inn, Lorelai takes care of the New England Maple Syrup Council. Zack is jealous of time Lane is spending with a 30-year-old Asian man named Joe. At the Yale Daily News, Paris is making everyone except Rory uncomfortable with her demands, expectations and ideas. Later, the reporters gather together and talk about Paris and the fact that they think the paper is going down hill. The reporters don't ask Rory to be part of their discussion since she's living with Paris. But Rory sees the reporters in their meeting and they confide in her. Logan tries to mend his relationship with Rory by hiring the coffee cart guy to follow Rory around all day so she has instant access to coffee. Logan drops by the Inn to get help from Lorelai in regards to his relationship with Rory. Last but not least, Lorelai finds out about Luke's kid, April, and Luke asks Lorelai to postpone their wedding.

While Luke deals with the reality of having April in his life, Lorelai tries to pretend she doesn't mind the repercussions the new situation is having on their engagement. Rory's concern over Paris' lack of management skills at the Yale Daily News finally reaches a crisis point when most of the staff quits in protest. With Logan's help, Rory makes a valiant attempt to get the paper out on time. Meanwhile, Lorelai breaks the news to Richard and Emily that their money will no longer be needed for Rory's education, and the resentment starts to build. The subsequent Friday night dinner erupts into an emotional confrontation where all four Gilmores finally get their issues out on the table.

Emily tells Lorelai that she'd like to get to know her future son-in-law better and asks her to invite Luke over for dinner - Lorelai purposely fails to mention that the wedding has been postponed... The Yale Daily News staff finally fires Paris and chooses Rory to be the new editor. A furious Paris kicks Rory out of the apartment, Logan subsequently convinces her to move into his place. Christopher tells Lorelai about Rory's new living arrangement.

As Valentine's Day approaches, Rory and Logan invite Lorelai and Luke to spend a weekend with them at Logan's family's house on Martha's Vineyard. Lorelai is upset by Luke's unfriendly attitude toward Logan. Luke's attitude changes when he realizes he forgot to buy Lorelai a Valentine gift, and Logan saves the day. When Lorelai finally confesses to Luke that she is worried the wedding will never take place, he reassures her that they will get married soon. The weekend ends in an ugly scene when Logan's father, Mitchum Huntzberger arrives.

 

Lorelai offers to help Christopher out by babysitting his 3-year-old daughter, G.G, and is horrified by the toddler's terrible behavior. The next day, Rory and Logan attend the wedding of Logan's sister, Honor. While helping the bride and her three bridesmaids get ready, Rory is devastated to learn how Logan spent his time during their recent breakup. Heartbroken Lane gets a surprise from Zack at the diner.

 

Rory forgives Logan, then needs some time for herself, so she pays a visit to Lorelai in Stars Hollow. Although Lorelai refuses to admit that she is upset, Rory can tell that she is bothered by the news that Luke will be gone for a few days on a field trip with his daughter, April.
And, against Lorelai's wishes, Rory pays a visit to the store owned by April's mother, Ana, to spy on her. Meanwhile, when Zack finally works up the courage to ask Mrs. Kim for permission to marry Lane, he is surprised at the deal she makes with him.

 

Lorelai has a bizarre dream in which singer/songwriter Paul Anka has a cameo role. Meanwhile, although Rory and Logan are back together, Logan is miserable knowing that Rory hasn’t really forgiven him, and he takes off with his friends for another stunt with the Life and Death Brigade. Rory accepts Jess’ invitation to attend an open house at his new book store/art gallery/publishing house in Philadelphia. While there, she is surprised to run into Luke, who is accompanying his daughter April on an academic field trip. Back in Stars Hollow, Lorelai is horrified to find that Richard and Emily have been looking at real estate in her town.

 

Lane and Zack's wedding is coming up and since Luke is busy, Michel is Lorelai's first choice as a date for Lane and Zack's wedding, but he gets Celine Dion tickets and bails. Rory suggests that Chris go as Lorelai's date and Chris is totally psyched to do it. Grandma Kim is a Buddhist and doesn't know that Mrs. Kim is a 7th Day Adventist. At Lane's wedding, Lorelai collapses and Christopher is there to take care of her.

 

Luke decides to give April a birthday party at the diner. Lorelai volunteers to help, and is hurt when Luke explains that he still thinks it’s too soon for April and Lorelai to meet. However, Luke changes his mind when the party is a disaster, giving Lorelai a chance to bond with April while turning the party into a huge success. Meanwhile, Rory rushes to be with Logan at the hospital after he is seriously injured during a stunt with the Life and Death Brigade.

 

Logan comes home from the hospital and is cared for by an overprotective Rory. Liz has big news for Luke and Emily has LASIK eye surgery, so Lorelai has to serve as her chauffeur. Rory is then upset by a statement Logan's dad made about her in an interview in the Wall Street Journal. And Jackson discovers that former employees planted marijuana in one of his fields, and he and Sookie try to dispose of it.

 

Stars Hollow is suddenly overrun with troubadours when news gets out that the town's regular street performer has been discovered. On the evening of Logan's graduation from Yale, Rory throws him a wild party, but the knowledge that he is being forced to leave for London the next day makes their time together bittersweet. Meanwhile, at a Friday night dinner, Emily and Richard attempt to set Christopher up with an attractive young woman. Finally, Lorelai decides she was wrong to let Luke postpone their wedding for so long and delivers a tearful ultimatum.