Technically yes? Pheromones put both people in a very incoherent state so they can’t legally consent, but there are mangas where they are both “into” it.
The second story is quite interesting. (I admit I don't remember if it has rape though).
And Love Shuttle doesn't have rape for now (at least to me, I read some other has seen rape in it so it's up to you to judge if there is or not).
For now, those are the only omegaverse stories I read and enjoyed.
While most of them are rape bait stories there are some that aren't. Those are generally cuddly family type stories. I'd tell you which ones but I can't remember the names.
Here are my nonrapey recs...I put in warnings about dubcon so check my comments for each manga... http://www.mangago.me/home/mangalist/334330/
Currently, my understanding of the omegaverse is that it gives plot fuel for characters to become rape bait and otherwise sane characters to rape the rape bait characters. Plus, other vanilla background types. I understand there is more than one omegraverse around.
My question is: Is there more to omegaverse than rape plots?