Well... since nobody entered this... sadly- I thought I would post some really good Yugioh fics. If you want to read some good fanfiction, these ones are good ones to check out. If you want me to post more, I will.
smile http://www.fanfiction.net/s/6510534/1/Rosetta by Animum. Fandom: Yugioh Who is in it: Pegasus, Rishid, (Ishizu is talked about). The characterization of Pegasus is not something I would want to miss- that is what makes this fic special. I loved that Animum used characters that are not often used in fanfiction. I think that is what really stood out- besides the great story telling of course.
http://www.fanfiction.net/s/5655087/1/Insomnia by Tendency. Fandom Yugioh. Who is in it: Joey Wheeler and Seto Kaiba. This fic is pretty long but it is the best Jounouchi story I have found.
smile Rated M, but I have only read the first chapter so I don't know what is all in it other than the sheer fact that I know a lot of research went into this piece.
http://www.fanfiction.net/s/6424288/1/Egomechanical by Seto Kaibaman. Fandom: Yugioh. Who is in it: Seto Kaiba. Two others are talked about. This fic is short but I had to read it several times because of the pretentiousness to which this was written. It is from Seto Kaiba's point of veiw... and it is really good.
http://www.fanfiction.net/s/5937679/1/No Regrets by Individually Packaged. Fandom: Yugioh. Who is in it: Marik and Yami Bakura. Rated M for Lime. Very well done. WARNING loads of spoilers, but very well written. Made me cry.