I don't see the problem with the raptors from the other Jurassic World movies. It was established in the first movie that they listened to Owen because he was there when they were born. He had imprinted on them which is in keeping with the lore of the first three. And also they turned on them in the first movie. With only Blue really establishing a connection again.

I don't think there is only one timeline. In part 2 when doc draws the illustration of the two timelines he doesn't erase the original timeline. He just says they can't get back to it because they are traveling through the new timeline. This implies that while there are other timelines their time machine can only travel through the one that it's currently in.

Here's the way I see it. Time travel is way too complicated for anyone to fully understand it. That's why every show that uses time travel gives it there own rules. If you try to understand it you will just give yourself a headache. So just enjoy the movie and forget about explaining it.

I will however say how I personally think it works. Multiple timelines do exist, but doc's machine can only travel along the timeline it is currently in. The old timeline where he died is still there. But Marty returned to a new timeline in which doc knew everything he had told him.

In part 2 when doc is explaining other timelines to Marty we actually see this illustrated. Doc drew a line to indicate the original timeline. He drew another one for the other timeline to show where things changed. But he didn't erase the original timeline he just said they couldn't get back to it. Because they were now traveling through the new timeline.

Just watched the scene over again. The hat was not in the box. However I don't think she would be Andy's mom either. My thought is if she gave up all the other cowgirl stuff she probably gave up the hat at some point as well.

My biggest problem with this theory is that Jessie brings up Emily again in Toy Story 3. If Andy's mom was Emily, and she thought Andy s was abandoning her two. I feel like she would have brought that up there.