Major retcons of the comics have been a recurring thing for alien/predator/AVP since the early 90s. Pretty much every time a new movie released starting with Alien 3. I've been expecting another retcon ever since I first heard about the fox/Disney merger. Disney/marvel did the same thing with Star Wars, as someone previously pointed out. It's frustrating but understandable. They tossed out pretty much everything except the movies and started fresh. Slowly, they've been re-introducing the old EU characters/concepts and meshing them into a *less* convoluted new EU. Tbh it's not all that different from how marvel has handled their flag-ship properties either (how many times have they rebooted the spider man comics? X men? Etc.).
I guess the good news for predator is that a large portion of the stories were anthology-style so they can stand alone. That makes it easier to keep it as your own canon without any contradictions despite marvel/Disney's stance on its canonical status. For example, if you're a big fan of "Predator: pride at nghasa" they'd really have to go out of their way to purposely remove this out of potential-canon status with a new story that takes place then and there to contradict it. Otherwise, a story like the one marvel just started does very little to change the stories that came before.
Prey, on the other hand did result in a retcon of a comic. That short story "1718." But unlike the retcons from the ALIEN side of the fence, this movie only retconned a single, 10-page short story rather than the entire EU. Personally, I like Prey better than that old "1718" comic anyway.
Ps. About that "anthology-style" remark, I guess I should add a note on to that. This was largely the case before the "Predator: Hunters" series. Nemesis, bad blood, big game/blood on two-witch Mesa were all stand alone stories that were then tied together by the "hunters" series. The original Schaefer trilogy (concrete jungle, Cold War, dark river) tied in with the first movie more, and "hunters III" tied them in more strongly with nemesis, bad blood and big game too.