Hmmm, i have a theory. We have the good guys (Humans/droids), We have the possible snake thing and the mutations. We also have the ship and the chair/bio suits (so now the "space Jockey in chair is debunked as a suit).. Then we have Mr Blue "Prometheus". But, if it is literally his name meaning then he is just a puppet for another greater power because he is the guy who give us our "fire". So, he is seemingly being held captive or forced to pilot/maintain/protect this temple and its contents. Then what is the greater power keeping him there? There is something we have not seen.
For some reason i am getting a very big Borg vibe. We see the walls of the ship morph and then we have our ampules of goo and bio mech. I think all along there was never a space jockey " creature " at all. At some point near the dawn of existence some goo formed on some planet evolved over millions of years and now its ... the tech we see flying around populating the universe with variants of its own genetic code in prometheus. Also the one king dies and another takes over i think that Mr Blue's time is at an end and that one of the new crew will end up being our new pilot (David).