Rate me MaTI or Autistic, but look, I don't like the rape stories, or the pokephilia/bestiality either, I think Arceus having sex with a human is stupid. But it's not smut, it's not porn, it doesn't go into explicit details, it doesn't read like it's written with the intent to titillate the audience. Like others have said, it's written from the perspective of being in universe mythology and takes inspiration from japanese mythology pertaining to myths about animals and youkai. The events of the stories also end with everybody dying, the Typholosion wants to take care of and keep the human girl he kidnapped and he dies, the kid from the Lapras/Octillary ends up fucked up and kills a bunch of people, the Rapidash/Ursaring dies.
And for keeping it around, Nintendo and the companies they work closely with have a policy of being autisticaly detailed with their archiving, and even with all the unfunny rape jokes and I'd rather have Gamefreak and Nintedo be keep a detailed record of their games production than not, and I'd rather have these records be known to the public than not It's honestly great being able to see the development of the pokemon games be this will archived when so often a lot of the time information like the early builds, southern kanto, beta sprites... etc is lost to history.