This is why it is helpful to "furnish" interior spaces with stuff that ought to be in them (beds, desks, workstations, machinery, etc.) after you've decided where the walls go.
Does that linear drive machinery have accessibility on both sides? Or is it crammed up against a wall and there is only one linear access shaft along one side?
Walk into your Bedroom.... How many 1.5m (re 5ft) squares are there to walk around in... i.e. the area without furniture.
Depends on the arrangement of the interior decorating and the layout of the building plan. Apartment kitchens however can be as little as 30% walkable space between counters, cabinets and pantry on either side of the central aisle.
Engineering/Mechanical spaces, half of that volume is filled will with machinery.
Sounds about right if you want to have bilateral access to that machinery for maintenance purposes.
Control rooms and the like generally 30 to 50 percent full of equipment and other stuff.
Depends on the control room, I guess. If you arrange the workstations around the walls of a central area (ala NCC-1701) you can have a pretty good ratio of walkable area within the room. Do more of a linear control area (submarine style) and all of that changes due to the difference in configuration.
I take the C-130 pallet approach for cargo accessibility. There's only room to move around when the cargo hold isn't packed to the walls, like you said.
I have spent a chunk of my life Living and working aboard ships. It's from this I comment. With that there is less usable for miniatures space than you would think.
Surface ships are probably "too generous" in terms of volume and access to all kinds of stuff. You really want to be thinking in terms of a closed environment such as a submarine (conventional or nuclear) to get an idea of how "cramped" the interior spaces ought to be inside most starships.
This is why when I look at the Geomorphs Tiles and note that they're 20x20 deck squares for quite a lot of them ... and then I realize that those "wonderful deck plan spaces" that are being detailed are ~200 TONS worth of displacement for a single Geomorph Tile, at which point using them "as is" for ACS starts becoming rather ridiculous.
This is also why I say that the best course of action when it comes to actually MAKING your own deck plans is to start with determining what the volume of certain things ought to be (drive bays, internal hangar, staterooms allocation, etc.), work out how many deck squares ought to be allocated to those things and then start making shapes for the bulkheads those things need to fit inside of. Then, once you've decided where the bulkheads go, start "furnishing" those volumes with STUFF that goes inside of those spaces. It's when you've "furnished" those spaces with stuff inside of them that things like walk space and accessibility (and sight lines for wargaming) just naturally emerge as you fill spaces up with stuff.