I'm wondering if the scenes where we see Bernard working with Dolores are actually in person or are they in Dolores' mind?
Some items to support that theory:
- Dolores is clothed - we've seen that, not only is it rare for hosts to be clothed when in the facility, but Ford is clearly angry when he sees it happen
- Where would these interviews take place with no one around? I suppose there are vacant areas of the facility, we've seen some, but it seems very risky if Bernard were doing these in person
- And to those two points, Ford sees EVERYTHING. If they are happening, Ford knows about them. Maybe he's watching to see where they go... or they aren't happening like we see them.
- This episode, we saw Dolores wake from the meeting and she was out in the middle of nowhere with William. Was she taken in the middle of the night for that meeting without William noticing? Or did she just 'dream' the meeting?
Could the meetings be happening in Dolores' "bicameral mind"?
One last theory - I think it's pretty clear that the MiB didn't rape Dolores in Episode 1 - and I've felt that way since I saw the scene. I always figured he was doing something towards his end game, and rape would be wasting his time.
Now I have a theory - I think he was teaching Dolores what happens frequently in her loop. "Your parents get killed, Teddy dies, then you get dragged in here and raped... next time, grab the guys gun..."