The incest patch was made at the beginning of the game's development, but it was dropped, simply because incest didn't make a lot of sense in this game, story-wise.
If you want details, the patch made Heather the Main Character's mom, Chloe his sister, Hannah his cousin, and Carol his aunt.
The problem, it's established that Chloe and the MC had a crush of sorts in the past, with Hannah even encouraging them to be together. There is nothing implied to be "forbidden" in their relationship. The voice actor of the Main Character also calls Heather by name, he doesn't call her "Mom". Among other details that I probably forgot.
Lust Epidemic, which was made before the Patreon purge, was built with incest in mind (you could even change the names yourself in the game's files). By the time of Treasure of Nadia, NLT wasn't making an incest game anymore, but you could "force" a little bit for Janet, the mommy's figure, to be the MC's actual mom, and Kaley his sister. This is not the case anymore in The Genesis Order, incest simply doesn't fit.