After about 7 hours of play, I find the capturing enemy ships mechanic a little less than useful.
First, it is hard to do, at least with the “HP” size fleets I’ve been working with. Usually one captures, if anything, a stray fighter or seven. One might capture a frigate or two, occasionally, but they are often chewed up, and they can’t be fixed.
They’re not worth much as scrap, either.
As mentioned elsewhere, it would be cool to be able to fix them. If the process could be as automated as ship/fleet repair is now, it would be cool to be able to fix them, but perhaps in limited ways. Shield modules are pretty universal–in fact, any module that is shared among the factions should be replaceable. Alliance Lightning guns can’t be repaired by a player using the Federation, for example, but those “alien” modules could be scrapped and cruiser lasers put back in.
This is probably a nightmare to code, so oh well…