Still at odds with her mother, Rory seeks out Lane's perspective and decides to talk to Dean. Lorelai and Luke clarify their new relationship while Emily announces she and Richard have separated.
With tensions still high with her daughter, Lorelai takes it out on the inn's employees till Sookie asks her to cool off. Realizing she was wrong, Rory writes Dean a letter, leading to unexpected trouble. Lane has feelings for Zack.
Jackson is overwhelmed by the demands of his new job. Lorelai and Rory attempt to bring Richard and Emily back together. With Dean back in the picture, Lorelai tries to make things right with dinner and a movie.
Rory struggles to find a story worth pursuing for the student newspaper. The Dragonfly Inn's accountant suggests dropping the lunch menu to avoid losing money, which upsets Sookie. Christopher needs help babysitting.
When Emily discovers that Lorelai is dating Luke, she insists he come to dinner. Not to be outdone, Richard invites Luke to a game of golf, and Luke finds himself overwhelmed by the strength of the elder Gilmores' personalities.
Luke tries to smooth things over with Liz and TJ when they stress out about buying a house in Stars Hollow. When Emily learns Rory and Dean are dating again, she calls a temporary truce with Richard to throw a party to introduce Rory to more suitable men. Dean realizes he isn't one of them, and Logan realizes he is.
Jackson has his hands full between Sookie's food cravings and his town selectman duties. Lorelai invites Christopher to lunch, but Rory tells him off and asks Lorelai what Luke thinks of her and Christopher having lunch. Emily decides she's still a viable commodity and asks Lorelai to help her start dating.
Rory hosts a Chilton student for a few days at Yale. Paris dates again. Lorelai learns about Luke's dark day. Logan works his way into Rory's life. Rory and Richard pull a prank.
Rory continues to give her dad the cold shoulder until she learns his father has passed away. Lorelai spends time comforting Christopher but keeps it from Luke, and Richard and Emily find a lost dog.
Richard gets jealous and comes to a realization after finding out who Emily is dating. Rory offers to help Logan with an article, but she has ulterior motives. Tensions arise when Lane and Zack attend a Kim Family tradition. A "ghost" haunts the Dragon Fly. Emily has a time-sensitive warning for Christopher.
Emily and Richard renew their vows. Rory experimentally kisses Logan, triggering a turf battle between Luke and her father Chris, who insists that Lorelai's attachment to Luke is temporary, because Emily has convinced Chris that he and Lorelai are meant for each other.
After all the drama at the wedding, Lorelai is afraid she'll lose Luke, who needs time to process what's happened and finally decides her family and history may be too much for him. She takes to her bed to wallow where Rory tends to her needs while the town takes sides.
Lorelai is hurt again when she realizes Luke has moved his boat from her garage without even telling her. Luke helps the school kids build the sets for their Fiddler on the Roof play in hopes of working with Lorelai who he is realizing he misses. Rory tries to make up with Marty by hosting a movie night, but Logan interferes.
Luke, upset and missing Lorelai, begins to take it out on his customers. Lane realizes her mom is in her head, and with the grandparents back from their second honeymoon Rory makes it clear that Friday night dinners are just dinner and nothing more. Emily acts like she doesn't realize all the hurt she's caused Lorelai, but goes to see Luke to make things right.
Rory and Logan's casual dating situation gets more complicated when Rory spots Logan with another girl and her jealousy sets in. Rory decides to go to a party with a guy she barely knows, which makes Logan jealous. Luke and Lorelai resolve things, but Lorelai is still upset with her mom and refuses to go to Friday night dinners, which makes Emily wonder if Luke followed through on their previous discussion.
Luke volunteers to help convert old man Twickum's house into a museum just to see if he can buy it. Meanwhile with the help of some Founder's day punch, Lane, Paris and Rory commiserate about their love lives. Lorelai forgets to keep some news off the record when she is interviewed by a magazine about the success of the Dragonfly Inn.
After realizing that casual dating isn't for her, Rory tries to break things off with Logan, causing him to agree to see her exclusively. Logan's family isn't happy about the match despite Rory's breeding. Luke's patience is tried as he takes over as temporary chef at the Dragonfly while pregnant Sookie is ordered to bed rest, but Sookie has trouble giving up control of her kitchen. Meanwhile, Paris finds out where Doyle has been all weekend.
Taylor agrees the museum is a bust. Lorelai meets to discuss selling the Dragonfly while Rory starts her new internship with Logan's father. Friday night dinner with the grandparents goes great for Logan and Rory while Lorelai, after begging to attend, gets the cold shoulder.
The article about the Dragonfly comes out and Luke and Lorelai celebrate. Sookie goes into labor. Logan's dad Mitchum reviews Rory's work and Luke has competition from an unlikely source to buy the Twickham house.
Rescuing Rory after a night of reckless behavior with Logan, Lorelai is shocked to hear her daughter's plans for the future. Lorelai first turns to Richard and Emily for help, but soon realizes that Luke is the only person she can trust.
