https://www.fanfiction.net/s/3838953/1/Sight-the-King/
Fic rec! 127K Puzzleshipping
Summary: After Yuugi wakes up at the scene of a crime with blood on his hands and a voice in his head, there's only one thing he can do: Run.
Comments: Oh did this fic catapult itself to top fic status! If you didn't like the card game, this fic is for you, because it takes off very early. Vol 2 in the manga, and by anime timeline I think shortly after the first duel with Kaiba.
Yugi becomes aware of Yami before he can leave the site of a Penalty Game, and is accused of murder - including that of Joey. And yet, while there's no card game, no Ishtars, this fic still hits all the good points of the show - understanding who Yami is, building Yugi's confidence, and solving the puzzle of...the Puzzle.
Yami is amazing here - all dark shadows and see-through spirits in the style of S0- and the lore around the Puzzle and the implications for Yugi are brilliant. There's a fair bit of metaphor, wrapped up in the way myth is passed through generations, and there's a wonderful parallel of what happens to this pair. EG: Just as Yami gets trapped by the puzzle, so too does Yugi. There's also a great sense of a feedback loop between them, shared grief growing or touches echoing across them to the point where the sex scenes are pretty much static to show how overwhelming but wonderful things are between them.
The way Yami is like 'i have dominion over all games' and uses that. Over the Puzzle. Over Yugi.
Yugi's sacrifices so much for Yami in a way I can't get enough of, and Yami seeing that gets him to do what I'll always want him to do - stay- to the point he passes on a chance to be Pharaoh. So much of this fic will stay with me forever. From the metaphors to the ideas of split souls to just how all consuming Puzzleshipping can be.
It's a long, old fic, that's only on ff.net at this point. But you really, really do need to read it.