Bee-train obviously can't skip this arc in the anime without losing the plot of the manga entirely, which would mean making up the rest of the show themselves. They skipped Idols (and I still haven't forgiven them for that - would have been better than the bus, dammit!), but Tokyo has to stay.
I look forward to seeing what they do to this arc - now that Yasha and Ashura aren't in it, I only watch the anime for 1) the music, 2) helping Sailor Yue with her guide, and 3) a kind of sick curiousity to see what Bee-train will mess up next.