Persona 3

Shadow Cry is a side story to the main plot of Persona 3 taking place during and making reference to the events of the main game. It is told primarily through Jin Shirato's point of view and details the daily life of the members of Strega. (Source: Megami Tensei Wikia)

Owari no Kakera is an original story taking place one month prior to the beginning of the original game. It is told mainly from Akihiko Sanada's perspective beginning with him seeing a mysterious humanoid-shaped Shadow while exploring the Tartarus together with Mitsuru Kirijo. (Source: Megami Tensei Wikia)

A non-hentai compilation of side stories that could have taken place within Persona 3.

The comic anthology follows the female protagonist and not the male protagonist from Persona 3 Portable.

Taking place during Persona 3 Portable, it features Elizabeth as its protagonist and explores Persona 3's female protagonist's relationship with the inhabitants of the Velvet Room, including Margaret and Theodore. (Source: Megami Tensei Wikia)

A manga anthology released by ASCII Media Works about the popular Atlus game Persona 3 Portable.

Following the plot of the game, it switches between the viewpoint of different characters as they face off against each other in the tournament. Commonly following the story from the viewpoint of Yu Narukami, Aigis, Yosuke Hanamura, Mitsuru Kirijo, and Naoto Shirogane as they face off against the other characters. Both Yosuke and Aigis face off against Shadow Labrys.

Persona 3 FES: Alternative Heart is the official novelization of Persona 3 FES.

Persona 4koma. Started off as a web manga before being picked up for serialization.