The story is a love story between Seimei and Yuki that started more than a thousand years ago. Through various re-incarnations, they've never been able to life happily ever after...

I've only played Koyuki's route, which given the story, is probably the most appropriate.

Primary Characters:
Makoto Kusanagi: Main character of the story. He belongs in the school drama club and is the playwriter for Asuka's play.
Koyuki Kusanagi: Main female character. She's actually Makoto's cousin, but calls him "brother" anyway. She just started at Makoto's high school.
Asuka Izumo: A mysterious new student who shows up and presents an old book that she wants them to perform.

Present Day:
It is summer break, but there are still a few students in the dorms including Makoto and his room mate Shin (name is actually Makoto also, but can be pronounced as Shin so they do that for distinction). One of Makoto's favorite places near the school is a place called the "Sealed Hill." He goes there and finds that his cousin, Koyuki is there. She informs him that she's going to be attending his school. They go to the drama room where she meets the other students of the club that have remained. They decide to do a play for the schools opening after break but don't know what to do. Then, Asuka walks in with an old book and says she wants it acted out. Makoto is put in charge of writing the script based on the book.

Act I, Heian Period:
Seimei (played by Makoto) is a mage during the Heian period who can summon up various creatures. As he rids some robbers, he stumbles onto a young girl (played by Koyuki). At first, he tries to scare her with his beasts, but it turns out that she's blind. She has no memories of who she is and where she's from. He takes her in and gives her the name "Yuki (Snow)." On his way back from a festival, they find Tamamo (played by Asuka) outside their door. He also takes her in. Later Seimei runs into Hidesato (played by a teacher) who he has been led to believe killed his father and has been seeking vengence ever since. Hidesato tries to explain to him that his father wanted to die (they were at war and didn't want to die from an enemy's wound) and he was the one who had to do the deed. Yuki also steps in and stops Seimei from killing him. After the incident Seimei explains to Yuki the situation. Seimei meets his mom, Kuzuha, some time later and she gives him a sword to use on Hidesato for killing her husband, but to use it, he has to kill Yuki who's apparently the keeper of the sword.

Present Day:
Nana, another student, doesn't seem to be able to play the part of Kuzuha's shikigami. But just their luck, another new student, Madoka, shows up. She's perfect for the part.

Act I, Heian Period Continued:
After a few more encounters with Kuzuha (through her shikigamis), Seimei and his mother get in a scuffle and Yuki gets killed while trying to stop them from fighting.

Present Day:
They formally invite Madoka into the group, Makoto prepares the second act, and more everyday life with the characters. Nothing too interesting.

Act II, Kamakura Period:
The second play happens during the Kamakura period and starts with Oohime (played by Koyuki) whose about to be wed to Yoshitaka Kiso (played by Makoto). Their wedding is more politically motivated than anything as her father is a lord as well as his father. She really doesn't want to be married off and just wants life to continue as it always has, with her doll "Tsuki (Moon)," and her two maids, Mikuri (played by Asuka) and Yae (played by Nana). When he comes to visit, she gives him the cold shoulder and despises him. However, when she drops her doll down a cliff and Yoshitaka goes to retrieve it, she starts to like him. Days later, he meets a monk (played by the teacher who played Hidesato) who comments on the sword that Yoshitaka carries around. He tells Yoshitaka to rid the sword as it's a bad omen. But as a samurai, he refuses to part with his sword that's been in his family for generations. He then finds out from Yae, who's playing a double agent for his dad, that his dad is planning to attack Oohime's father and wants Yoshitaka to kill Oohime. He refuses to do so. And runs away with Oohime when the army comes. He tells Oohime to run ahead and he'll meet up with her later. She gives him her doll, Tsuki as good luck. He then meets up with Oohime's mother who turns out to be the re-incarnate of Kuzuha and Tsuki was her brainchild to keep tabs on Oohime, who's Yuki re-incarnate. Yoshitaka then realizes that he's Seimei. The mom and son kill each other and again, Seimei and Yuki's love is broken. Oohime keeps on waiting for him to return, even when she knows he's dead.

Present Day:
Koyuki seems very bothered by the play, but Makoto doesn't seem to understand why. Asuka asks Makoto if he feels anything for Koyuki, but he's still clueless. At the "Sealed Hill," Sakura flowers suddenly start blooming.

Act III, Taisho Period:
The last act happens during the Taisho period with Shinichi and Seiji Nakamoto, a pair of male twins both (Makoto). They live in an apartment building with Asuka Kuze (played by Asuka) and Yukimi Asou (played by Koyuki). Yukimi is apparently the landlady, but she has a terminal disease so she has to stay quarantined in her outhouse. Asuka visits Yukimi often and tells her story about Seimei and Yoshitaka. Seiji also visits her and has fallen in love. Despite the fact that his brother is the novelist, he tries and starts writing down the stories that Asuka tells Yukimi about the people in the past. One night, he has a dream about a kimono girl and wakes up hearing a scream from the "Sealed Hill." The legendary sword has been unearth. Things then start becoming very strange as Seiji feels like Shinichi is acting a little different. Seiji also has more and more dreams of killings followed by actual slayings in his city. At the climax, it's revealed that Seimei has been re-incarnated as both Seiji and Shinichi, but that Yukimi, Yuki's re-incarnate loves Shinichi and Seiji's memories about her are all Shinichi's. He was also the one killing people (in his jealously, I suppose) and has now killed Yuki. When he realizes this, Seiji kills himself and waits for their next re-incarnation.

Present Day (Sakura):
Makoto finally realizes that he and Koyuki are Seimei and Yuki, Yoshitaka and Oohime, and Shinichi and Yukimi. Asuka and the teacher (both re-incarnates themselves, but knew it long before) find out that the sword, which was hidden in the "Sealed Hill" has been unearth and taken. They try to take Yuki away, but she comes back. Turns out that Madoka is possessed with Kuzuha's spirit and they have their showdown in the church where they rehearse. Makoto and Koyuki defeat her and Kuzuha gets re-united with her husbands spirit. On the day that school starts, Koyuki stops calling him "Onii-chan" and calls him a more appropriate (for lovers), "Makoto-san."

キミボクそして私が立つ今日 (You and Me, and Today I Stand)
Author: 榊一郎 (Ichirou Sakaki)
Illustrator: 狐印 (Koin)
New Characters: アグニエシカ・グラバルティック (Agnesica Grabaltik), ヒムリーム (Himurim), 鈴乃宮詩月 (Sizuki Suzunomiya), 長居優樹鵜 (Yuuki Nagai)
Chapter 1: Years ago during the war, many students died when Suzumiyano Private School was bombed and the students inside burned to death. Present day: Agne works for the occult group in the Ministry of Education and has been dispatched to investigate students who have been mysteriously disappearing at a school in the country side. So she, and her talking chipmunk, Himurim, travel there under the scorching sun. She finally comes up to a vending machine, but it's broken. As she kicks it in anger, it falls off a ledge and she falls with it. When she wakes up, she notices that the day is fine and she's in front of a school. She's met by a girl, Shizuki and 4 other students. While they look normal enough, some of the students start losing their limbs and reattaching them. As Agne tries to escape into the building. When Shizuki has her cornered, a male, Yuuki shows up telling Shizuki to knock it off. Yuuki then explains to Agne about how Shizuki is embodiment of the spirit of the school and that people who come in can't leave.

聖竜伝 (Legend of the Sacred Dragon)
New Characters: ファナ (Fana)
Chapter 2: Shin and Latkis escape from the flying dragon only to come back to the villiage to be caught by slave traders and are waiting to be sold. Shin spots a young girl who he thinks shouldn't be a slave as she's too young. Later, they see outside their cell that there's a fighting dragon that has gone out of control. In the confusion, the two of them escpae, but rather than just fleeing right away, Shin goes and finds the girl. At first, the girl doesn't want to leave but with the raging dragon around, she clings onto Shin. When they reach the outskirts of town, Shin and Latkis meet up again. They find out that the girl is a mute and that her name is Fana.

1. 零章・始めの始まり (Chapter 0, The Start of the Beginning): This track is split up into three segments. The first has Seimei explaining how he betrayed his mother because of Yuki and Tamami. The next scene has Yuki explaining why she left that one night (which happened in the game). She leaves because she, as a guardian of the sword, will only bring grief to Seimei. Tamamo's monologue starts there too where she sees Yuki go out alone but admits that despite being a shikigami, she's a real person to Yuki and actually a friend. Even though she was supposed to not tell that Yuki had gone, she informs Seimei so that he would go bring her back. Ends 4 years after Yuki's death where Seimei hears Yuki's voice telling him that she would wait forever for him.

2. 真の受難 (Shin's Agony): Shin, Asuka, and Koyuki are the only ones in the dorm for tonight. Shin wants to get close to Koyuki, but Asuka gets in the way and scraps with him.

Tsubame Syndrome: ACT13[夢見る歯車] (The Gear From the Dream): Rumor has it that a meteor fell in the city last night. It's Cocktail, a female robot who has come from outer space in search of Taiga as she also has a Origin Heart. At first, she's quite annoying as she tries to keep Taiga for herself. Taiga scolds her but eventually accepts her into his family.

Maburaho Colorful: 第２話「りん、藍いろのこころ」の巻 ("Rin, Blue-Colored Heart" Chapter): In a little scuffle with some girls from Rin's dojo, Kazuki gets her sword broken. Yuuna says that there's a famous swordsmaker in the mountains so the girls with Kazuki go. The other girls become tired and stay behind in the mountain. Kazuki decides to accompany Rin to the top. They go and spend a week there training to earn the sword. When they come back, they find out that it's only been 2 hours since they left as there was a time barrier at the swordsmith's house.

Karin: 恥の２１「血の接吻とヴァンパイアの眠り〜thantos〜」 (Bloody Kiss and a Vampire's Slumber): At the school festival, Karin is afraid that her grandmother would go out again and attack her classmates. She has some help from Anjyu, but her grandmother still goes to the school and collects blood from a female student. Her plan was to bring it back for her husband (Karin's grampa), but they find out when they open his coffin that he's dead (even for a vampire). The grandmother gets over her saddness and decides to sleep again in her coffin.

Zero In: Piece16 AGE. 16: Mikuru still thinks about her father and Kina, but vows to get stronger and more independent. She tries to go back to enjoying school. On the rooftop, she sees Kou with another girl and tries to shrug it off. That night, she breaks down as she feels like everyone important to her has left her.

Full Metal Panic: MISSION55 Strike Back: Kurtz manages to kill the traitor, Gwen with help from his sister. Meanwhile, Sosuke brings Kaname to the LC, a secret room in the submarine with a special seat. On the deck, Galon thinks he won, but the screens suddenly go blank and Tessa, using her "Whispered" abilities takes over the ship.

Maid Guy: 2: The Maid Guy, Kogarashi is really getting on Naeka's nerves as everything he does seems to be perverted in some way. However, her grandfather still wants to keep her protected until she's 18. Naeka's brother's female maid gives Naeka a whistle that's supposed to be painful for the Maid Guy and in fact it is, but she finds out that it would kill him if she blew on it for more than 10 seconds.

Girl Following: 第３話「たましいのいれもの」 (Soul's Container): After jumping down from the tree, Natsuru gets hit by a truck and dies instantly. Eitaro is now filled with regret as he allowed her to go by herself to find her keychain. When Miori brings some flowers to the place where she got hit, she gets possessed with Natsuru's spirit (like how it was in the one-shot comic a few months ago). She spends time with Eitaro but knows that she's just a ghost. Miori/Natsuru then passes out.

Taisetsu na Koto: Step 11: Nami makes the connection between Sumomo's muteness and her mother's accident before falling ill with a cold. Ryutaro seems to be getting along better at school. At least he's attending. On top of that, he decides to try out at track and sets a record. The classmates find out about his part time job (as working is forbidden for students). Meanwhile, Rieko seems to like Ryotaro and Chika has been asked to bring Nami's work home for her. While Nami's asleep, Chika doesn't accept the fact that Nami likes Ryotaro and gives her a kiss (!?) before running off.

Love Dog: 第３話「わんわん★ラブシック」 (Woof Woof, Love Sick): It's mating season and Amane seems to be a little more self-conscious. She's really bothered with wondering whether Shinichiro likes her just as a dog or as a girl. After creating a scene, Shinichiro says he likes her as a girl.

Nodoka Nobody: 六の湯「おもてなしのこころ」 (6, One-Sided Heart): The client that Nodoka and Miki have now is the owner of a hot springs where she wants to have the larger rooms fitted with a bath. The first thing that they notice is that the people at the inn are overly nice, almost to the point of being pushy. As the building is being renovated, Nodoka hears how the owner scolds an employee for not being hospitable enough by not carrying their customer's luggage. However, with the completion of the bath, Nodoka gets the owner to talk to the employee and understand that sometimes, people don't need to be helped.

Step 6 浜風と龍太郎 (Hamakaze and Ryutaro)
Step 7 駆ける少年 (Running Boy)
Step 8 心の熱帯夜 (Warm Night in the Heart)
Step 9 明日へのSTEP (A Step Towards Tomorrow)
Step 10 龍太郎の告白 (Ryutaro's Confession)

Yotsuba to: ２２よつばと勝負 (Competition with Yotsuba): Yotsuba and her dad are playing a more violent version of paper-rock-scissors when Jumbo comes over and they start badminton. Ena and Miuchi drop by and Miuchi explains how during summer vacations, he doesn't go out much because his dad is busy. Jumbo gets moved and wants to take him to the beach and/or mountains.

To Heart R: 3: Hiroyuki and Maruchi get invited to a summer house. While Ayano and Aoi practice their fighting, Maruchi and her fellow robot, Serio, go pick strawberries. They meet an old man who apparently owns the place and allows them to gather the fruit. He unexpectedly collapses and Maruchi takes care of him even though she herself starts overheating. After he recovers, he gives the authorization to continue work on Maruchi (apparently, he's the head of the company).

Ichigo Marshmallow: ?: Chika and Miu go through an old photo album and see pictures of Nobue smoking, even when she was young. Nobue explains her past. They then see a picture of Miu taking her underwear from Nobue's families laundry. Years ago, she had wet her bed and went over to Nobue's place to do her laundry.

Gunslinger Girl: 第２４話　カテリーナ (Katerina): Story goes back to Franca, Franco, and Pinocchio. Franca's real name is Katerina and in the past, she had been close with Patricia and had told her she would quit school because of her father's death. In current time, she returns to a vineyard and leaves Franco and Pinocchio there while she goes to Rome. In Rome, she gets discovered and taken captive. Franco and Pinocchio hear about her abduction and go rescue her.

KuraKURA: 5: Ruuna's mother goes to school give her absentee note dressed as a student. She then has a flashback to her past with her high school flame and how she couldn't protect him.

Muv-luv: 5: After Takeru trains with Meiya, Yuuko comes in and tells them that they're going to the south islands for a vacation. However, despite Takeru's initial impression, it's not a going to be a leisurely one.

Kashimashi: 7: Hazumu is still preoccupied with Yasuna's incomplete drawing that has a group of kids drawing, but the guy's face is not drawn. The class goes outdoors and draws and when they come back, Yasuna talks to Hazumu. She explains that she's never been able see nor draw the faces of males and since he was a male at the time, she couldn't draw him. However, she's now a girl. Yasuna gives Hazumu a kiss just as Tomari comes in.

Psiren: 6: Soichiro won't get compensated for his dinner with Meruna as it really looks like a personal date despite his insistence that he was investigating. To prove it, he's going to set up another date and get some information. He sets up an appointment with Meruna, but due to some circumstances in the office, he has to delay it. The date happens several days later, but not without problems.

Uta-Kata: 4: The girls go out to the fireworks festival where they are joined with a couple of male classmates, one of whom is Nozomi. Satsuki has a crush on him and wants to watch the fireworks with him, so Ichika and Manatsu help out with their magic. However, underneath the fireworks, Satsuki sees Nozomi kiss Keiko.

Negima: ８１時間目　痲帆良際、大開幕 (Mahora Festival, Grand Opening): The 78th Mahora Festival starts and Negi goes to his class's haunted house. After being scared out of his wits, he suddenly collapses into Konoka's arms. The all-nighter he spent with his students is getting to him, so Setsuna accompanies him to rest in the nurses office. However, the two of them oversleep and he misses his date with Nodoka. They panic and activate the watch that Chao gave him and suddenly, it's 10am that same day.

Suzuka: ＃４５秋雨 (Autumn Rain): Yamato stays after school to work out, but Honoka has to leave early and can't accompany him home. After practice, Suzuka chooses to stay at school to finish a report. She and Miki meet up with Yamato, who doesn't have an umbrella on this rainy day. Suzuka then changes her mind and offers her umbrella to him and says she'll go home with Miki. Yamato leaves and Miki asks Suzuka if she likes him. Suzuka denies it.

Toto: ６「魔犬の正体」 ("Magical Dog's True Self"): Kakashi and Dorothy escape and find that the army is attacking the transformed Toto. From the head officer, they learn that Toto is a failed experiment. Toto then starts "melting" as his body can't handle all that stress, and when he becomes just a lump, Kakashi approaches it and gets swallowed.

Toto: ７「トト！」 ("Toto!"): Dorothy fights the officers to to prevent them from killing what's left of Toto and Kakashi. Inside, Kakashi sees the little dog he used to know and grabs his magical collar. Just as he does so, the army fires a missile at Dorothy and Toto. As the smoke clears, Dorothy is standing there with Kakashi and Toto as his left arm. Toto had stopped the projectile.

Student Council: ＃８狼の息吹 (Wolf's Breath): Musashi and Kaoru are still fighting. Mami throws a bracelet to Musashi and using that, he is able to unleash even more power in his attacks.

Hamanaka Ai: ０６７エロ本を読む人々 (People Who Read Porn): Ai finds some bundled erotic magazines and gives them to Masahiko because she hasn't seen any in Masahiko's room. During their conversation, Nakamura and Rinko both admit that women reads those things too. His mom comes in and sees it and tells Masahiko to properly store them as she knows where he usually hides them.

King's Sword: ２０血路をひらけ (Open Up an Escape Route): Ryubi, Kanu, and Chohi fight the bandits and then spot the leader of the gang.

Changing Now: ＃３５策略！！史上最悪の罠 (Trick!! The Worse Trap in History): There's a fake Dog Fighter beating up the innocent, except that he doesn't look a bit like the real hero of justice. However, when other see the two of them, they believe that the fake Dog Fighter is the real person.

Suzuka: ＃４６白川 (Shirakawa): Yamato and Honoka are shopping in a CD shop and he tells her that he loves the singer, Nana Shirokawa. Honoka asks if that's the type of girl he likes. Meanwhile, Miki invites Suzuka to sing some karaoke that night, especially the songs of the new star, Nana. As Yamato and Honoka eat a mean, Nana shows up and sits next to them. Apparently, she and Honoka are good friends and go back a long time. The three go do karaoke and when Honoka steps out, Suzuka comes in and sees Yamato with another girl. After the confusion gets cleared up, Nana starts to see the love triangle.

Hamanaka Ai: ０６８打倒中村 (Nakamura K.O.): Ai feels like Nakamura has been teasing her and she wants to get back at her. She asks her old boyfriend about her weaknesses, but doesn't get much. When she meets Nakamura again, she mentions in passing that Nakamura's strap is showing. She freaks out, but for another reason.

Toto: ８「トト融着」 ("Toto Metamorphosis"): Kakashi and Toto (his left arm) knocks out and disables the entire company that was went out to eradicate Toto. The leader of the army is stunned.

Negima: ８２時間目　痲帆良際、再スタート！？ (Mahora Festival, Restart!?): Setsuna and Negi (with Kamo) realize that the festival has just started. They go outside and almost bump into their previous selves. Because they have time now, they spend it enjoy the other events at the festival. Setsuna seems to have grown fond of little Negi, but Kamo interrupts their mood. Setsuna bumps into Chao and interrogates her about who she is with this power to harness time and what she wants. Does she want to backstab Negi. Chao explains that she would never hurt Negi as they share the same blood.

Student Council: ＃９強すぎた力 (Overwhelming Force): Musashi defeats Kaoru, but then hurries to rescue him as he vowed to just beat his power to save him. On the side, Mami is visited by a new character, 天田秀光 (Hidemitsu Amada) who she apparently knows and he tells her that tomorrow is the day that everything will become clear. As Kaoru is recuperating in the hospital, Musashi confronts Mami and asks her what's going on. She explains how he has latent powers in his DNA from beasts humans evolved from. She then takes him to a door where she explains that the original student council from 10 years ago entered this door and never came out.

Changing Now: ＃３７凄絶！！ ３vs３ (Extreme!! 3-on-3): Dog Fighter fights against his impostor and finds that he's a formidable enemy. Velveteen Rose fights against Machina VV, her brother.

King's Sword: ２１黄巾賊の最期 (End of the Yellow Headband Bandits): Ryubi meets up with the leader of the bandits, but when he takes off his headband, it turns out to be just another soldier. He spares his life. For now, the bandits have been defeated at this village. After the fighting, Chohi goes to find Meishien, but as he does so, she gets hit in the chest with an axe.