Not a lick of sense? I don't know, it seemed to be pretty straightforward. The Doctor didn't want the Ponds to leave him, the Ponds were thinking about quitting anyway, and circumstances ultimately made the decision for them. That's the arc, isn't it? What's nonsensical about that? Or are you talking about something else?Perhaps I should clarify, not the story of the episode (though that had pacing problems) but the story of the arch itself, indeed the season so far felt as if it doesn't make a lick of sense.
That is indeed the arc, and the end of it kinda sucks. If you're just going to trap the Ponds back in time anyway, what dramatic purpose does it serve to have them going back and forth about whether or not they want to quit? Their fate pretty much make the conversations in the earlier episodes worthless.