Mogumo is known throughout their entire school as an easy target. They are non-binary—neither male nor female—which ostracizes them from the rest of the school community. However, in a chance encounter, they meet a boy named Tetsu Iwaoka, who decides to bring Mogumo to a maid cafe.

Tetsu claims that the people there will understand them, and Mogumo jumps at the chance to meet people similar to them. However, Mogumo soon becomes upset after learning that the place is seen as a "girlyboy" cafe, and they are mistaken as a cross-dressing boy. Tetsu manages to convince Mogumo that it doesn't matter what their sex is, and they gladly join the team of cafe workers. Thus begins a story of self-discovery and acceptance as each character explores the concept of gender and its meaning.

Fukakai na Boku no Subete wo has been published digitally in English as Love Me for Who I Am by Seven Seas Entertainment since June 2, 2020, and in print since June 30, 2020.