Mage - S7 also brought some Tholian (Romulan) missions. I've played one where you were rescuing captured Romulan ships and another where I was defending a Romulan station. You can access the PVE queue from the Hail Starfleet button.
Sounds like you're following the episode grouping that Cryptic set up a while back. That's okay if that's what you want to do. Sometimes there's continuailty, but often there isn't. You aren't locking into following those. Should be able to jump around if you're the appropiate level.
Timelord - Season 3 (Sector space and crafting update), Season 2 (Vice Admiral and Diplomatic ranks), Season 1 (Special Task Forces).