From Forbidden Garden:
Chaos and mayhem is afflicting Yoshida Akari's school. There is a ruthless bloomer thief on the loose-and no one is safe!
But on a more serious note, Yoshida Akari's best friend, Hayakawa Maiko has been missing for 3 days now, and it seems as though no one is making any head in the investigation. So, Akari decides to take things in her own hands and questions the last person who was with her best friend, Student Council President Morishita Natsu. He quickly gives her the brush off stating that he is too busy with the bloomer incident.
Who is this mystery thief and just what exactly has happened to Maiko?

1) Atelier
Art student Ritsu takes on Tagami, a teacher with a bad attitude.

2) Mad Dog Breeder
Kusugawa wants to discover what his coworker Oka means when he says he get "desperate" when he drinks.

3) Longing for the House Guest
Haruka and Jun are roommates and novelists. After Jun's sloppy housekeeping causes Haruka to injure his hands, guilty Jun needs to help Haruka any way he can.

4) White Snow, Black Wings
Ex-prostitute Mizuki and mafia assassin Katsuhiko are on the run from their former bosses, but Katsuhiko is sick.

5) Milk
A young man has a guy who wanders in and out of his life like a cat.

6) Twilight Amusement Park
Teacher is dating his student, Yoshii, who wants to quit school and work in an amusement park, but Yoshii's family wants him to study abroad.

7) Haruhi
His young patient dying of a mysterious illness, a doctor takes him on a trip to the sea.

Strippers try to stop a zombie infestation.

From Nakama:

A phantom thief has been creating an uproar, passing through every defense and stealing countless works of art! When he takes a liking to the "maidenhood" a guard sacrifices to him, he leaves without stealing the goods... The guard of a certain art museum is completely taken in by that scheme. Their relationship began with contractual sex but before they know it, the two of them are attracted to each other. However, the thief's younger brother kidnaps the guard to get revenge on his elder brother and a big group gang rapes him-!

Travel into Japan's nuttiest apartment house and meet its volatile inhabitants: Kyoko, the beautiful and mysterious new apartment manager; Yusaku, the exam-addled college student; Mrs. Ichinose, the drunken gossip; Kentaro, her bratty son; Akemi, the boozy bar hostess; and the mooching and peeping Mr. Yotsuya.

From ShoujoMagic:

A low-price, high-quality apartment in the metropolitan area of Tokyo is nothing short of a miracle! It exists, but there's a catch -- tenants must be good-looking and pass an interview by the landlord!? This is a love comedy about what happens when the beautiful people are all gathered under one roof!

Based on Mainichi Seiten! (Novel)

From Peccatore Sanctuary:
On a particular night, an unexpected guest suddenly turned up outside science fiction magazine editor, Obinata Taiga and his family's home! The person was actually Asuoo Shuu, who had married their elder sister; the dictator of the family, and since became their brother-in-law. What's even more incredible is that he is not only the writer that Taiga is responsible for, but was also Taiga's high school classmate! But, just when everyone was vehemently expressing their objection to Asuoo, they received news that their all-important sister has gone missing! Out of ideas, Taiga had no choice but to let Shuu stay on, they could only wait until their sister comes back to decide everything!

Mainichi Seiten series:
Vol 1-2 Mainichi Seiten
Vol 3-4 Kodomo wa Tomaranai
Vol 5 Children's Time
Vol 6-7 Kodomo no Iibun
----Aki-chan no Iibun
Vol 8 Isoganaide
Vol 9-10 Hanaya no Nikai de

Sherbet Lemon and Covenant of Darkness:

The snow mountain is his territory, no one is suppose to live there! Who is this daredevil?! How dare he chop off my favorite gingko tree. To make it worse, he took all the furnitures in my cave! Darn! I won't be a demon fox if I didn't take revenge! But... he's just an idiotic scholar, why can't I get close to him? When the mischievous but innocent snow fox meets a slow yet scheming scholar, the truth isn't what Xue Qiu expected.

From Aerandria Scans:
In this grim and realistic take on classic fairy tales, Prince Ludwig, a female corpse collector, is ordered by his father to find himself a wife more suitable than the women he often brings into the castle. Along with his servant Wilhelm, they travel across the land in search of fair maidens from classic stories in hopes of finding Ludwig a wife.

High school delinquent Mura must put up with the annoying presence of new stepbrother Subaru when his mother goes away on honeymoon. Dealing with gossip at school is bad enough, but Mura's life is turned upside down by a forbidden locker-room kiss and the publication of an incriminating photo snapped by BL fangirls.

Takaguchi Satosumi's first BL work.

Based on DS Dating Sim "Love Plus."

From Shoujo Manga Maniac:

The very modern tale of a girl named Yun, with a penchant for picking the wrong guys to fall for...and the bad boy, Hiromichi, who may just be good for her after all!

From Viz:

Risa Koizumi is the tallest girl in class, and the last thing she wants is the humiliation of standing next to Atsushi Otani, the shortest guy. Fate and the whole school have other ideas, and the two find themselves cast as the unwilling stars of a bizarre romantic comedy duo.

Lovely Complex Plus is actually volume 17 with the final chapter called Love Com Final. The first two chapters are about before Koizumi Risa and Otani Atsushi met each other. The third chapter is about their first encounter and a little bit of what happens to them after the ending of Lovely Complex.

*Contains a side story called Hoshi ni Natte mo Aishiteru (Even When I Become A Star, I'll Still Love You) in vol 12:
Reina wakes up surprisingly in her boyfriend's room. But it seems that she passed away three days ago...

In 2004 Lovely Complex received the 49th Shogakukan Manga Award for shōjo.

Kouji's mother has just remarried, and as a result, he has a brand new father and two unbelievably beautiful twin brothers. In order to get to know his new family better, Kouji transfers to the same private school that his newly acquired step-brothers attend. But when Kouji finally meets them, the two have completely opposite personalities! And it seems like one of them is intent on being more than brothers!?!

Contains two stories:

I. Migiko Nipponichi!! -
As children Sakon confessed his love for Migiko and promised to protect her, but not long after suddenly cut all ties with her. Now, many years later, Migiko is determined to make Sakon take notice of her by becoming Japan's Number 1 idol. - From Solaris-SVU.

II. Takuya of the 7 Wonders.-
There's a rumor in the school that if a person steps into the school at night, they will disappear. Sanami, a middle school student who is oblivious about the rumours, decides to prove those rumors out. She gets her best friend missing and now must save her before she disappears.

Mekakushi no Kuni is the story of high school student Outsuka Kanade who can sometimes see a person's future with a touch, and transfer student Naitou Arou, whose ESP is limited to past events. When Kanade glimpses an unfortunate incident coming, can she change it? She soon befriends Arou, who's no novice. While Kanade’s power is limited to the near future and is somewhat incontrollable, Arou’s is permanent and he can even use it to see an object’s “memories”. Are these teenaged seers of the past and future made for each other? And who's right: Arou with his "hands off" policy about meddling in people's lives, or Kanade whose more proactive stance has already had unhappy consequences?

From Fantasyshrine:

High school student, Kaiya Mito is currently going out with Sakaki Yuma, a young enterpriser. Out of frustration, Mito daringly threatens to cheat on the seemly nonchalant Yuma! What's more shocking is that Yuma seems unaffected by the threat and encourages Mito to do it. So during their vacation in Hawaii, a furious Mito decides to carry out his threat. However, even when he's in someone else's arms, all he can think of is Yuma. But what's the reason behind Yuma's stoic attitude? An adventurous love story.

From CPM:

An alien armada from Jupiter has amassed enough power to destroy all of Earth's defences. Earth's final hope lies in the Space Battleship Nadesico, a ship created using recently discovered extraterrestrial technology.
Can the Nadesico's rag-tag crew overcome their idiosyncrasies and defeat the alien fleet, or will Earth's last hope be lost?

The manga differs greatly from the anime

[From Viz]:

Ginta Toramizu is a 14-year-old kid who doesn't have a lot going for him: he's near-sighted, doesn't do well in school, sucks at sports, and to top it off--he's short! But Ginta is a dreamer and has had the same dream 102 times, always in the same fantasy world, where he is a hero blessed with all the abilities he lacks in real life.

Then one day a supernatural figure appears at Ginta's school and summons him to a mysterious and exciting new world! In this strange universe filled with magic and wonder, he is strong, tough, agile--and he can see without his glasses! Thus, Ginta begins a mystical quest in search of the magical items known as "ÄRMS," one of which may have the power to send him home. Joining him on this epic journey are his companion Jack and the valuable living, talking, mustachioed iron-ball weapon known as "Babbo," which everyone wants but, it seems, only Ginta can possess!