It's nearing the end of July, and with the deadline for finishing their dōjinshi looming, all the club has to show are the two pages drawn by Ogiue. With Kugayama's continued lack of material pushing the deadline (and Sasahara's patience) to the limit, it looks like they'll have to put aside their differences (and their sleep cycles) to get things done on time.

The day of Genshiken's participation in Comifes has arrived, and they are finally set to take their place as a vendor. But despite (or because of) Haraguchi's "blessing," sales are initially slow. Ohno's arrival (in cosplay, naturally) seems to change their luck for the better, but things really get underway with a surprise appearance. How Kasukabe will react to it, however, is another matter entirely.

Ohno likes Tanaka, Tanaka likes Ohno. Both however are too shy and lacking confidence to make a first move. With the rest of Genshiken in a state of concern and confusion over their relationship, Ohno confides in Kasukabe her anxieties and Kasukabe suggests a possible approach that may give both of them the courage to confide their affections.

Ogiue catches Sasahara and Madarame in an unintentionally-compromising position, setting her fujoshi imagination alight with various slash pairings between her fellow club members. She may have just found the inspiration to make a dōjinshi for next summer's Comifes, but her sketch of Sasahara gives Saki other ideas.

Genshiken is making preparations to go to the upcoming Winter Comifes as a group, but when the other members invite Ogiue along, she adamantly refuses. That doesn't stop her from appearing anyway in the guise of her high school persona to buy all the latest yaoi dōjinshi, but things get complicated as she (literally) runs into the rest of the club.

Graduation time is finally upon Tanaka, Kugayama, and Madarame, and with it come emotional reflections on the past three years for the club. The presidential torch is passed on, and a Kujibiki Unbalance OVA finally gives closure to the first season, but what about Madarame's job hunt? And for that matter, what will become of the Genshiken under President Ohno?

It's the beginning of the school year, and Ohno is planning out her first year as the president of the Genshiken. How will the club change under her cosplay management? Also, Ogiue learns that she's accepted to Comifes and tries to work up the courage needed for her debut. But will the newest iteration of the club sink or swim, and will Kuchiki be Ohno's nemesis, or her unlikely savior?

Sasahara's job search is not going as well as he'd hoped; at every turn, his negative portrayal of himself and uncertainty over his own beliefs make companies balk at hiring him. Meanwhile, Kousaka's absence is starting to get to Saki, while Ogiue struggles to draft her Comifes dōjinshi without any interference from Ohno's fetishes. But could Kuchiki be on to something about Sasahara and Ogiue?

As Ogiue continues her preparations for Comifes, now a few days away, friends of Ohno's from the US show up unexpectedly to come to convention as well. While the foreign otaku ways of Angela and Sue shake up the (somewhat) peaceful clubroom, perhaps Angela is the "sensible" one when it comes to understanding the feelings of others.

As Comifes starts, Sasahara help Ogiue set up her doujinshi booth. Angela cosplays with Ohno in the costumes Tanaka made for them, while Sue wonders around the convention. Sue eventually obtains one of Ogiue's doujinshi books, and ask her to sign it, claiming it is "real hardcore." At a bathhouse, Ohno wonders why her plan to make Sasahara and Oguie a couple is failing. After Comifes is over, Sue and Angela leave to go back to the United States, with Ohno shipping the massive amounts of doujinshi to them later.

Failing continually at his job interviews, Sasahara begins to lose sight of what he's working towards. He finds himself settling to apply for any available opening, and ends up on the brink of giving up altogether. It takes some harsh words and tough love from the rest of Genshiken to convince him to try one more time. And for that matter, how are the other members making out?