Yeah, okay, fun as it is these really need a per-unit damage cap. For evidence, see: Taking out 6 golems with one Mk III lightning warhead, then being able to take out most of their 28 buddies and supporting ships with a dozen Mk II Martys. Really is absurdly unbalanced currently.
I like the idea of a cloaked ballistic missile submarine starship by the way, maybe 500 knowledge. Just a nice bit of extra fluff which saves you having to micro cloaker starships.