I LOVE frigates so much now. There is so much power!
For once though I feel worried about running out of antimatter blaster ammo - 40 shots ain't that good if you run out of sabots and don't have something else to crack shields. YOU HAVE TO TRY AN AUTOPILOT HYPERION VS HYPERION. It's brilliant. They're so fast, it's an amazing showcase of the AI. I actually love frigates so much I am considering rolling a frigate only fleet, because there's so much speed and usability involved. It's mind blowing to think I could, currently, actually kill anything with real ease with my four ship FRIGATE fleet. Ship systems are just... so well done. I am only missing one thing, and that's missile support, but I don't even think I need that so long as I have my fleet the way it is.
1* Omen
1* Hyperion (those two work in tandem, the Omen shuts down an enemy ship's defences, engines, etc. and the hyperion comes along and blasts it with the pulse lasers, and Atropos missiles if need be. And holy hell is the Phase Teleporter in a world of it's own. I actually don't know how to counter a ship that can be everywhere at once so easily.
1* Afflictor
1* Shade (see above, but these give me time with phasing and they are amazingly powerful, I have EIGHT atropos missiles for use now, which is enough to crack a hole in an onslaught with bitter ease)
I am not really planning to add fighters, but a Doom cruiser would be very nice (125 speed? are you kidding?!) though I'm not liking the 500 flux a second upkeep, it makes it feel rather... weak. Consider phasing is a defensive system, that means I don't entirely have too much time for use with that, though it has a very flexible weapons layout, and one I'd like to play around with.
On phasing - it rocks. The ability to just ignore everything going on around you is awesome, and very useful. It increases the survivability of a ship SO MUCH! And it has other uses too, from preparing an attack, to reloading weapons, though I noticed something that made me go

and that was you're still affected by pocket nebulae. It's rather strange.