Mizuki Usami is a passionate member of her school's art club, but the club has a problem—Usami is the only member who takes her craft seriously! The lazy club president constantly sleeps through activities and Collette hasn't regularly attended club activities in quite some time. Uchimaki Subaru, despite being an exceptional artist who could win an award if he tried, is obsessed with drawing the perfect 2D wife. Light-hearted and comedic in tone, Kono Bijutsubu ni wa Mondai ga Aru! follows Usami as she struggles to do art club-like activities, often obstructed by her motley crew of good-for-nothings and her distracting crush on Subaru.

Chihaya Ayase is obsessed with developing her school's competitive karuta club, nursing daunting ambitions like winning the national team championship at the Omi Jingu and becoming the Queen, the best female karuta player in Japan—and in extension, the world. As their second year of high school rolls around, Chihaya and her fellow teammates must recruit new members, train their minds and bodies alike, and battle the formidable opponents that stand in their way to the championship title. Meanwhile, Chihaya's childhood friend, Arata Wataya, the prodigy who introduced her to karuta, rediscovers his lost love for the old card game.

Yuuta Hibiki wakes up in the room of Rikka Takarada and notices two things: he has no memories, and he can hear a mysterious voice calling his name from a nearby room. On further inspection, he finds a robot—which introduces itself as Hyper Agent Gridman—behind the screen of an old computer. Much to Yuuta's surprise, Rikka cannot hear Gridman, nor can she see the ominous monsters looming over a thick fog as it envelopes the town outside. Another giant monster materializes in the city and proceeds to wreak havoc. Amidst the confusion, Yuuta is once again drawn to the old computer and merges with Gridman. Suddenly, he appears in the middle of the battle and is forced to fight the monster. Together with Rikka and fellow classmate Shou Utsumi, Yuuta forms the Gridman Alliance to defeat the monsters plaguing the city and find whoever is responsible for their emergence.

In order to pursue her dream of bringing positive changes to Japan, Mitsumi Iwakura leaves her countryside town to attend a prestigious high school in the hustle and bustle of Tokyo. As she has already mapped a clear life plan, she has absolute confidence that there will be zero mishaps from then onwards. Despite her ambitious promise, the country girl ends up running late on the first day when she gets lost on her way to school. Fortunately, she meets a fellow first-year student, Sousuke Shima, who is in the same situation and offers to go with her. They eventually make it to school, but the misfortunes do not end there, as Mitsumi leaves an unfavorable first impression in front of her classmates. Nevertheless, the class soon takes notice of her friendship with Sousuke despite their opposing personalities. Only time will tell whether Mitsumi will be able to forge fruitful relationships with her classmates, and she will certainly not be alone.