So, imagine you're me, and mess up the backstories of two ships. On the one hand we have the Baton Rouge: a ship with a minor story behind it, mainly from some pictures wherein the nacelle is seen drifting in space next to it. Oh. That was supposed to be a repair thing? Right. Oopsy #1. Then there's the Bonaventure; this one should be more familiar to Trek fans. This ship was seen in TAS: The Time Trap, where it was trapped in a pocket dimension. Now with Discovery, we know that the mycelial drive isn't as safe a technology as you'd expect from Starfleet. But hey, they were at war, mistakes were made; can't say I blame them. But now let's mash those two stories together, apply some DSC cream into it, and we get... The Baton Rouge!
This ship is an illegal attempt by Section 31 to take Stamets' research and apply it themselves. My original idea was that Control was already gaining sentience and appropriated the tech, but failed to grasp the finer details. So, yeah sure, holes in the saucer!.. but no revelving saucersection. Because I still don't quite understand why those thing revolve. But hey, whatever. Looks kinda cool! Then, during testruns, the ship vanished with all hands on board... into the pocket dimension! Just waiting for the Enterprise to show up and... not really helping them. Poor souls...