It occurred to me yesterday, perhaps the "Temples" on LV-223 weren't temples at all. I'm working with the theory that there are indeed 2 separate factions of engineers (a theory that's been discussed elsewhere on the forum).
These separate factions may have been at war over beliefs, or other religious matters. Perhaps the installations on LV-223 were used by one faction to imprison the other and test out new Bioweapons on them as a kind of torture. Including the xeno.
This kinda explains the holograms of the running engineers, the pile up of bodies behind a closed door and the reason the one engineer got decapitated ( the "guards" shut him out so the xenos would get him). My theory suggests that the dead engineers we see in the corridors aren't the xeno's creators, but the members of the second faction that were imprisoned and experimented on.
This would also tie in with the idea of a prison planet from alien3.
just a theory...kinda plausible
what do you guys think?