I probably would have felt the kids were a dangerous idea if the books weren't so settled into sci-fi and magic already. But it was pretty common place to have kids in weird ways. And in the story itself, was sold as being completely normal and ok. By Doctor Strange himself.
I think comics just switched from wanting those fantasy elements to wanting everything rooted in reality and being edgy. So stuff like that had to go and had to be painted then as abnormal. Wanda is insane for creating babies with magic and crazy for being with a synthetic man, because that doesn't work in the real world sort of thing. And that whole edginess started even before the 2000s. It started in the late 80s. Comics were starting to not be allowed to be fluff anymore, because that wasn't cool.