Why don't you think they're going to be stuck? Me, I can't help but feel it would be a bit anticlimactic if they went back to their lives like nothing ever happened. Then again, if they either stay where they are or go back they'll die in the Reckoning; probably going to be third option time.
I feel it just doesn’t quite fit the themes of Homestuck, that Joey and Jude would be separated forever.