With this episode, the resolution phase of the season begins in earnest, as Jesse's plan to drive a wedge between John and Cameron comes to its fruition. Riley's death may have been a bit premature and it may have taken place in an unanticipated way, but it still serves Jesse's interests. This episode is about the expected fallout from the news of Riley's death, particularly the suspicion thrown on Cameron and Jesse's psychological issues with her conscience.
John is willing to trust Cameron at her word, but he does have his doubts. Cameron's recent behavior sets the stage for their assumptions, but her own defense is scattered and inadequate. There were any number of things that Cameron could have said or done to prove her innocence, and even if the Connors were doubtful, it's all circumstantial. All it took was a cursory inspection of Riley's body to convince John that Cameron wasn't involved (at least, that's how I intercept his expression in the morgue).
In the meantime, Derek is willing to assume that Cameron killed Riley, and that she'll have to be dealt with, but he also seems to realize that Jesse's story doesn't track. One can imagine that Sarah, John, and Derek will have it out regarding Cameron, and Derek will come to the realization that Jesse's comments were a bit too on the nose. This is not particularly surprising, so one can hope that the writers have some twists and turns to bring to the table.
One might expect that Jesse's "flashbacks" would explain both the differences between her future and Derek's future (since they've all but admitted they come from different timelines) and her obsession with Cameron. While a general distrust of "metal" makes sense, Jesse's actions have always seemed a bit personal. This particular mission could explain quite a bit about Jesse's motivations since her arrival.
The portions of the episode devoted to the Connors, Cameron, Derek, and Jesse were mostly setup for the second part of this story, so none of it felt particularly out of place. It was the logical extension of what had come before. The scenes with Ellison, Weaver, and John Henry, on the other hand, felt out of left field. This is a continuation of Ellison's mandate to teach John Henry human ethics, which still doesn't quite equate in terms of the development of SkyNet. In proximity with the more portentous plot threads, it must hold some vital importance, but the meaning is somewhat elusive at this point.