Do you have any recommendations for using the different sized hulls...
In GC2: Dread Lords, small/tiny hulls can be quite useful since enemy ships have to mass their entire firepower into one overkill shot, and thus can only shoot one only fighter at a time. Obviously, this leads to larger ships being conveniently overwhelmed by a swarm of all-attack tiny/small hulls.
In Dark Avatar and Twilight, it's different. Since each different weapon can now target a different ship, the usefulness of smaller craft depends largely on tech rate. On Very Slow and Slow tech, small hulls are useful for war vessels because Mediums may take a bit of time. On higher tech speeds, I generally use Mediums as my main warships until I have the technological, industrial, economic and logistical capacity to skip over to Huge hulls, usually avoiding Large hulls altogether.
Despite the DA combat system, Small and Tiny hulls are still the most highly optimized ships for working with military starbases, since each individual ship gets the same set of bonuses, and because they're obviously the easiest to build and replace. Smalls also come useful as early-game anti-DreadLord interceptors which go around sniping their troop transports while you get your economy/industry/technology up and running.
Apart from that, Tiny/Small freighters require the least initial investment(and thus have the shortest break-even time), and Tiny/Small constructors are great for adding modules to existing starbases at minimal cost. On Very Slow tech with a lot of anomalies, I also make some small-hulled surveyors and let them run around until they gain a ton of hp, after which they become elite super-heavy fighters with more durability than newly-built Medium hulls. The small-hull tendency of gaining experience really quickly also helps these fighters' cause.