I suppose the blueprints and manual will be specific to NX/NCC-2000 and not general ones for the Excelsior
class? I'd like to limit the presence of Shuttlebay 1 to this prototype ship, as this is the only vessel that features the characteristic blue glow (in ST6), and also as the generic Excelsiors
are sometimes viewed from lower angles that reveal the true contents of that cavity (that is, some sort of a generic greeblie that more or less precludes shuttlecraft ops).
Also, it seems you are going to treat transwarp drive as an already developed feature to be installed aboard this ship type, rather than treating this ship type as a means for developing transwarp drive. I certainly agree this makes more sense. But if so, we probably have to drop the fandom notion that transwarp was a conceptual failure. It must have been a well-proven success if Starfleet risked installing it aboard this important ship type. Perhaps the installation was something of a disappointment, yes, but the transwarp theory itself must have been valid.
I'd drop the "infinite velocity" angle altogether. It's not stated in ST3, and it's not a feature of Borg transwarp, so it need not really be a feature of Starfleet transwarp, either. Just because the ship's computer says "all speeds available through transwarp drive" doesn't mean that all speeds in existence (from zero to infinite) would be available. It may merely mean that all the speeds for which this ship has been built are currently greenlighted by the internal diagnostics system.