Well I can't help you with bases though I will point out there's nothing that the AI bases have/do that cannot be simulated with a card, chit, or dice next to the aircraft. However I am like you and have a rather OCD nature to my bases so happened to stock up on them prior to death so YMMV.

For flyers there's several manufactures out there that produce nice SciFi minis at the appropriate scale for use with FW flyers, one of whom is a member of this board (Evil&Chaos, more on that later).
So the first thing that springs to mind is Reaper Mini's True Scale figures. They make great lander and Valkyrie/Vulture proxies. I'd check out the Merlin, Ghast, and Fenri especially though the whole range is great IMO.
LINKAnother good option that is just starting up is the new line of 6mm minis from
Troublemaker Games. They produce (or I should say will be producing shortly now that the croudfunding campaign was a smashing success) a human sci fi bomber that is in scale with a Marauder. I nabbed two of them myself just for some visual variation in my airfleet. You can see them on the
Gallery Tab on the indiegogo site. According to Ben the line is only going to increase and that includes flyers for Humans, his brutish ramshackle aliens, and 3rd line that is a heavily cyborg/augmentation based faction.