I've decided to combine the biomechanical thing with a classic ship's core; I give you the Rhea Program. (I chose the name to correspond to Argos, both of whom were children of Gaia which is strangely fitting.) The idea is that it is an evolving, sentient machine containing, and maintaining, a singularity; for use building a wormhole at its final destination. Add a few tens of thousands of years onto that, of learning and evolving, and you get this; a being of incredible intelligence, bifurcated personality, and virtual omnipresence, centered at a few spires distributed throughout the colony ship. You've effectively got a god, or a sort of Wyrd Sisters entity.
Inspiration came from a lot of human anatomy (masculine and feminine), and a few interesting-looking trees. Cables meet roots meet veins, oily swamp surface, lit from below... I like how it's coming out.