Yeah, I think the original meeting was the payoff. The second meeting was just an exposition-fest that really didn't mean anything to me. I mean, I'm sure it's important - just like the Blue Hand group with River and all that - but I guess I'm not invested enough in the mythology to find that kind of exposition all that interesting.
As for the rape plot, I got the feeling that they were trying to call attention to the allegory just in case people didn't understand that the Dollhouse was a thinly veiled metaphor for prostitution. But I'm also very cynical I guess.
I haven't made up my mind whether the show is clever and deep or not. It's easy to create a mystery, or ambiguous characters, it's harder to follow through and make it a good mystery, or ambiguous characters that are interesting.
That said, you're short selling the rape subplot. A rapist isn't all that deep. If you have a rapist he's going to be a piece of shit. Whether he's a prison guard, or a camp councellor, or a step dad, or boss, or who ever. The fact that the rapist was a piece of shit who came up with petty rationalisations isn't the point. You expect him to have a deep, interesting motive?
The point is that they are on the one hand carefully protecting the dolls, and keeping them from being abused, but on the other hand renting them out, sometimes for sexual purposes. Now, if the Internet Millionaire was into sexual torture, would they have agreed to it? Why not? As was revealed in the show, what the dolls do as dolls
does have a long term, ongoing effect, they are still people and the wiping isn't 100% perfect.
Or it is intentionally not 100% perfect. At the very least, Adelle is aware that Echo is carrying things away with her. Boyd is aware that they are "all broken". Topher and Claire know that they are being more socialized than they should be when they are wiped.
The intial premise that we were given at the start is false, and the characters all know it. The juxtaposition of the rape and the wife fantasy is what spells that out, it is both plots together, not just each one separately.