Maybe you're not getting where he is coming from. Scaling the ship up without adjusting the specific details...
They would have had to shrink the windows and change their locations, which in turn would have made them harder to see on the actual model and would have changed the aesthetics of the model itself. Instead, they simply scaled up the model and scaled up the windows with it. So instead of having a deck with a 3 x 5 foot window, you have a deck with a floor-to-ceiling window.