Thanks! I have lost nearly every Armada game I have played so I need to achieve mastery some other way. :-)
Scaling required a lot of trial and error. I eventually settled on a 2X virtual model to physical model size. At 1:1 the ships were a bit too small to select, and the squadrons kept getting lost. After that it was a combination of physically measuring the models and referencing various online sizes charts and then checking that, once imported they looked roughly right in relationship to the physical base (now placed in a virtual cube).
The maneuver tool was similar, measuring each joint and scaling it, and then measuring the angle at each tick. And then more trial and error to try and both preserve the game play of the physical maneuver tool while translating it to 3D and making the ship movement feel somewhat organic to the game.