[@Kazemitsu]

You know, the problem is that - realistically - we only have the lore to go on to say that Mother Brain and Ridley are intelligent.  Granted, a giant brain had BETTER BE intelligent, or you've fucked up.  But still...it's hard to gauge just how smart the bosses in Metroid games really are because there's generally no dialogue.  We, therefore, must infer from actions that Mother Brain and Ridley are Megatron and Starscream, respectively.  Mother Brain is a tactical coordination leader and Ridley is an attack platoon leader.  (Kraid, Phantoon, and others...we dunno.)  We don't generally see direct evidence of this because most of what we DO see is that Mother Brain is connected to all the systems around and Ridley is out breaking shit...and we see them attacking you.  That's not much to go on.  My thinking is that the Space Pirates and all their leaders are just very alien in thought, so we don't really 'get' them.

Not important.

As for DNA cloning and all that jazz, while I do understand it may be difficult to extract pure Chozo DNA from the Human-Chozo-Metroid mish-mash that is Samus Aran, I will allow the possibility that they could harness it and use it to augment other human beings or even create new Chozo lifeforms.  We have the technology to breed things from DNA [i]now[/i].  It's just illegal and morality ambiguous to clone intelligent beings.  That said, the sheep and the kittens prove the science even in our own world, so the Federation probably has an edge on things.