What we seem to have here is a case of sides being taken. Ballard and Langton, along with Echo, are taking the anti-Dollhouse side while Adelle is joining Mr. Harding in the pro-Dollhouse category.
The concept of skipping some time is always an interesting device to use in a drama. Who can forget the classic "one year later" on Battlestar Galactica? Adelle was demoted due to her loss of Echo while Echo trained with Ballard to eventually overthrow the Rossum by freeing a woman whose imprisonment she was responsible for in the first place. It seemed at the end as if "Lisa" was getting a new life much in the way that Actives get a new imprint.
Eliza Dushku did some good acting this episode, possibly the best yet in the series. Favorite line (or part of a line): "and, at least seven times, gay." Is that some sort of subtle political statement about homosexuality being psychological? Feel free to post theories in the comments.