That is also not answering the question or providing the clarification requested and is why I asked for specific examples & specific books. That's a critical clarification because it very much seems like you are weaving and bobbing around admitting that you are trying to say an updated darksun should drop significant setting fundamentals in order to downplay text that is painfully obvious not actually present in the actual game books. It seems very much like those two things are only objectionable when we ignore actual printed game books and focus exclusively on word of mouth thirdhand statements made for years by people who didn't actually read any of the books purported to support the claim or misrepresented the game book in making the claim.
Removing rajaat and the cleansing wars would do significant harm to the setting because keeping him healed is
THE reason why his champions (aka the sorcerer kings) don't just work to start rebuilding civilization or shifting from slavery towards more developed economies instead of regularly engaging in mass human(oid) sacrifices to maintain the seal on something much worse than post apocapyptic status quo cultural stasis. Without the cleansing wars those SKs maintaining the apocalypse are no longer also part of the cause and their extreme power seems like bizarrely unjustified plot armor.
To save everyone time and minimize the snipe hunt you seem to be asking for, here is what they kreen of athas has to say about rajaat and the cleansing wars.
Neither of them seems to be in dse2 blackspire mountains & beyond the prism pentad mentions cleansing wars
twice with rajaat being mentioned in relation to others he interacted with many many times but a quick refresh skim isn't seeming too noteworthy either.
So... is your bone of contention with "later product"
actually printed in any of those game books or is your entire point focused on taking a bat to deeply interconnected setting details to make changes that avoid embellished or fabricated thirdhand retellings you've read about that themselves were based on of the same sort of second hand retellings? If there is something you think is unreasonable printed in an actual game book, can you point to a specific book that you feel embodies the

"problematic content"

or can we just acknowledge that you may have been given a bad impression of what was
actually printed at some point in the last 30ish years & maybe shouldn't be looked to as the person to guide how to update a setting you aren't too familiar with?