Scoobes on 03 August 2014
If you want to use internal nanomachines then you'll need to make sure they have a significant biological component to overcome the immune response (or effectively make the immune system assume they're naturally meant to be there).
Also, I wouldn't have the AI tightly controlling the genetic pool to reduce diversity. This simply increases the likelihood of disease spreading and affecting the majority of the population and potentially across multiple colonies. Whilst the AI can regulate the nanomachines and enhance the attributes needed for space survival, I don't think scientists would find limiting genetic diversity to be a particularly good idea in the mid to long-term.
