1) No, Ships only move forward.
2) Immediately. Which means you can pin down/kill enemy squadrons before they get a chance to activate.
3) Yes. Destroyed is Destroyed, you get points for Destroyed. No running away!
4) The 3x6 Area is the play area for Ships... I mean, my local LGS only has 3.5' tables , so we slam 2 together, and end up using unused portions of the map for cards... But nominally, those cards would have to be moved if a Ship or Squadron flew there, as it is the play area for Ships.