Senpai wa Otokonoko
Senpai Is an Otokonoko: My Crossdressing Classmate

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Quality manga with good stories which include characters that are transgender, crossdressers, body swapped, LGBT, etc.

Most manga have complex characters with substance to the stories.
Wrote a sentence for each manga that lightly describes what each one is about.

Manga that have frogs and/or toads in them, can be real, can be items.

The fourth poll organized by AnimeJapan to know which manga would people like to see animated. There were approximately 250,000 votes. Only the top 10 were publicly announced.

(Source: https://www.anime-japan.jp/2021/main/ajranking/)

The fifth poll organized by AnimeJapan to know which manga would people like to see animated. Only the top 10 were publicly announced.

(Source: https://www.anime-japan.jp/2022/entertainment/ajranking/)

Manga originally released in full-color (as opposed to the standard black and white).

Part 1: https://myanimelist.net/stacks/8133

Thanks to maomango for suggestions
Next stack: Emma wa Hoshi no Yume wo Miru, Shinyaku Seisho

New Stack:
https://myanimelist.net/stacks/52198

The Next Manga Award (次にくるマンガ大賞 / Tsugi ni Kuru Manga Taishō) is an annual award for the best new manga series presented by Kadokawa Corporation's Da Vinci magazine and the Niconico streaming website. It is divided into two categories: one for print manga, and one for web manga.
Winners are announced every year at the end of August.

Source:
https://en.wikipedia.org/wiki/Next_Manga_Award
Website:
https://tsugimanga.jp/en


* - unofficial translation of the title

contains any story that mentions the concepts of

Any form of "Gender Dysphoria
Crossdressing
Transgender
Otoko no Ko
Femboy

Gender role reversal romance at its finest!!! When the female lead has very "masculine" features and behaviors; and the male lead has "feminine" features and behaviors <3

Part 2 of a list of animated adaptations, of which if they were given, they would possibly shake up social networks for some other reason.

2nd stack for WEBTOON's app-only Daily Pass series. Sorted by recency. Multiple Western series have been added as Daily Pass Originals since 2024 as well.

Part 1: https://myanimelist.net/stacks/6951
Part 3: https://myanimelist.net/stacks/56724
Ongoing: https://myanimelist.net/stacks/7255

manga with inclusive portrayal of love that seems realistic and won't make you cringe
(including BL, GL, rated mature)

please check out part 1:
https://myanimelist.net/stacks/25472
part 3:
https://myanimelist.net/stacks/55310

(from romcom to drama romance there is everthing)

This list will contain traps/crossdressers, not transsexual characters, if there is a manga here with trans it is because there is also trap in the same work.

(Willing) cross-dressing/gender non-conforming/drag queen/drag king characters that are not canonically transgender in manga. (I did include some debatably trans characters/characters that are sometimes tagged as trans.)

Anime version:
https://myanimelist.net/stacks/53553


Not on MAL (yet):

Dansou Joshi to Josou Danshi ga Kekonshimashita
Agaru Yamada (cross-dressing woman) (protagonist)
Anzu (cross-dressing man) (main)

Wagahai wa "Otoko no Ko" de aru!
Nanami Igarashi (cross-dressing man) (protagonist)

Ever growing list

a series of titles about male characters that (usually secretly) like cute things or feminine hobbies! the character can be main or supporting, provided they identify as male and have a cute/traditionally feminine hobby or interest! this can be fashion, make-up, girly media (like magical girl shows or shoujo manga), dolls or plushies, haircare, skincare, sewing, or any other kind of girlish expression! its for everyone!!!!

also heads up that some of these titles are 18+ so if u don't wanna see all that make sure to check the individual tags before you read them!!

(updating!!)

This is a list of the Shojo and Josei manga that have received physical releases from Kodansha, even if some of them are Out of Print.

Part 1: https://myanimelist.net/stacks/56768

Notably, I am NOT including any titles which have been physically released by Seven Seas or Yen Press in this list as Kodansha was not the one to give them a physical release.

I will include any titles which were previously published by another publisher that Kodansha has re-released.

I will also NOT include any titles released under Vertical Inc comics, which is under Kodansha. I have separate lists for Yen Press, Seven Seas and Vertical Inc Shojo and Josei releases. (For manga physically released under Vertical, see this list: https://myanimelist.net/stacks/56497)