SOIL by Atsushi Kaneko is my absolute favorite. It's a mystery story centered around the disappearance of a family from an idyllic little town. There's twist after twist here, and it gets pretty dark. Kaneko said once that he didn't draw a lot of influence from other manga and primarily watched American TV shows and films for inspiration, and it shows when you realize that SOIL is Kaneko's personal spin on
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Twin Peaks.Claymore by Norihiro Yagi is a story that I fell off of the first time I attempted it, I couldn't really get on board with it until I shifted my perspective on it a little; shounen is a hard sell for me and it gets a little tropey in places. The story's about these mercenaries that go around villages getting paid to slay shapeshifters hiding among humans. The art is extremely good and it does a superb job conveying movement, characters I thought I wouldn't care about actually ended up leaving lasting impressions for me, and without giving anything away I just adore the manga's ending.
Yokohama Kaidashi Kikou by Hitoshi Ashinano is a wonderful iyashikei story about an android who owns a little cafe. The characters are incredibly sweet and the story is calming and tender; it can be sweet and endearing or it can be quietly mournful at times. It's the kind of story that says to the reader that, come good or bad, everything will be okay. By the way, Ashinano's method for illustrating cloth is fantastic, it's my second favorite cloth in any manga just behind Battle Angel Alita by Yukito Kishiro. I love me some beautiful hand-drawn baggy clothes.
Edit: I can't believe I forgot to mention this one! Takemitsuzamurai by Issei Eifuku and Taiyou Matsumoto is my favorite samurai manga. The story follows a ronin trying to live a peaceful life, but trouble continues to find him. Matsumoto's art is beautiful, striking, and super stylized, it's the kind of art where if you see any of it you know right away who made it.
