So the entire point of phase ships is the alpha strike. They are very good at it. Since they can phase out they can choose the perfect moment to strike.
They are amazing when used properly, but it's fine if you don't like them. They aren't for everyone.
I dare say that Alpha Strike is almost useless in Starfarer, most of the time. Exceptions being 1 vs. 1 battles (only simulation case, or very early in campaign), or enemy venting/overloading (that's what we have Harpoons for). Every other time, there is little use of massive alpha, because you can take the damage on shields and run&vent (as long as you are as fast/faster than enemy). It's the prolonged fire that works best (on shields). If that wouldn't be the case, we would all use Antimatter Blasters instead of Pulse Lasers.
In order to take advantage of huge alpha strike, you need to either overload enemy ship or make him vent. Both are pretty much impossible in Doom, or not very effective (mega sabot salvo works for shields, but what after that, to take down armour?). You could make one of your allied ships fight with the enemy, while you wait phased in. But hey, good luck pulling that off with Doom,
and making it worth the trouble.Phase frigates, fine, I see their use. Doom? Not so much.
I haven't used phase ships since patch-day mega-testing, when I came to realise that I'm not spending FP effectively if using them. A Tempest will most of the time perform better than Shade or Afflictor, because it can outrun rockets, evade projectiles, and shield itself from other threats (such as beams, or fast fighters).
Uhh, sorry for messy post.