This OVA takes place in between episodes 8 and 9 of the first season of Hakuouki. Yukimura Chizuru goes on a reconnaissance mission in Shimabara as a geiko for the Shinsengumi. Each episode unfolds the events of the days leading up to, during, and after the operation. It intermittently reveals each captain's involvement as well as that of a few demons in the affair. Each individual episode primarily focuses from the third person perspectives of: Okita Souji, Saito Hajime, Harada Sanosuke, Toudou Heisuke, Hijikata Toshizo, and Kazama Chikage.

After the conclusion of Hakuouki, Chizuru Yukimura and the Shinsengumi are forced to flee Kyoto and set sail for Edo. In their commander Isami Kondou's absence, vice-commander Toshizou Hijikata steps in as acting commander. However, Hijikata is not only struggling with the extra leadership duties—which worries everyone around him—but also a newfound uncontrollable bloodlust. To make matters worse, the urge does not affect him alone, and it is even beginning to drive some of his subordinates mad. Finally, Kondou returns with orders from the emperor to defend the castle, and a new name for their squad: the Kouyou Chinbutai. But in war, the balance of power can shift suddenly and allegiances can waver. In Hakuouki Hekketsuroku, Chizuru follows the Shinsengumi into the heart of war and continues the search for her missing father, all while the bond between her and Hijikata grows ever stronger. [Written by MAL Rewrite]

In 1864 Japan, a young woman named Chizuru Yukimura is searching for her missing father, Koudou, a doctor by trade whose work often takes him far from home. But with no word from him in months, Chizuru disguises herself as a man and heads to Kyoto in search of him. Attracting the attention of ronin, she tries to hide and ends up witnessing a horrifying sight: the ronin being brutally murdered by crazed white-haired men. In a startling turn of events, members of the Shinsengumi arrive to dispatch the creatures. But Chizuru's safety doesn't last long, as this group of men tie her up and take her back to their headquarters, unsure of whether to let her live or silence her permanently. However, once she reveals the name of her father, the Shinsengumi decide to keep her safe, as they too have been searching for him. But Koudou is more connected to the Shinsengumi than they let on, and soon Chizuru finds herself embroiled in a conflict between the Shinsengumi and their enemies, as well as political tension in Kyoto. [Written by MAL Rewrite]

Those who receive the Revelation of Babel must overcome many battles and trials. By grasping the hand of their special partner, these "Hand Shakers" transport themselves to the realm of Ziggurat, an alternate dimension where time no longer exists. Each pair of Hand Shakers must battle it out for the right to meet with God, who will reward them by granting them a single wish. Tazuna Takatsuki, a high school student with a penchant for fixing things, is one of these Hand Shakers. After receiving a request for repairs from Professor Makihara of a nearby university, Tazuna stumbles upon Koyori Akutagawa, a bedridden girl that reminds him of his deceased sister Musubu. Remembering her dying wish to never let go of her hand, Tazuna grasps Koyori's hand and awakens his power as a Hand Shaker. However, Koyori's life is directly tied to her status as a Hand Shaker, meaning if Tazuna was to ever let go of her hand she would die. With meeting God being their only hope for saving her, the duo must find a way to make their unique powers mesh together, overcome the opposing Hand Shakers, and make their wish come true. [Written by MAL Rewrite]