What keyboard are you using? Could you save money by working with the same company that AmigaKit gets their Boing Ball keyboards and just using the guts from their keyboard and putting it into your case design? If it was just a discounted purchase of those keyboards without the keyboard casing and cord, then you could get the properly licensed Boing Ball Amiga keys and Help key marked, because you would be buying a product that is already licensed, just without the case and cord.
Just a thought.
At the moment the "X500 Plus" as the prototype is known uses a full size keyboard used in laptops.
I am not sure the Logitech (I think Amigakit uses Logitech keyboards) would work in the design, remember that changing the design just for the keyboard means a redesign and a new expensive prototype...
They are all good ideas but I believe it wouldn't fit the design.
I am going to leave the Windows keys on so people can do what they like; put their own sticker on, boing balls, Aros, Linux symbols etc...