I would like the ship to be heavily armed/armored, and it will have some type of shield generator, turrets, etc.. Where should I put these pieces (keep in mind the dynamics of the Secret Ops flight engine)?

As you can see I've basically textured the main hull and haven't added much to the model itself except a few details for textures (engines, interior type metallic panels, etc..). The textures are loosely based on the Kiranka battlecruiser textures.