Dr. Torley -
Hope you are doing well by God’s grace today. Thanks for sharing the links. I am not a biologist, so I cannot provide the same kind of feedback as the others who have already responded. However, the Bio-Complexity papers do not address the strong evidence for common descent of humans and other primates that pseudogenes and endogenous retroviruses provide. In case you have not already seen it, our friend Steve Schaffner has posted a video analysis of his own research on how pseudogenes and ERVs point to common descent among primates.
Assuming for the sake of argument that it were possible that all of humanity descended from a single mating pair who lived ~50,000 years ago, I would still have to conclude on the basis of evidence from pseudogenes and ERVs that the ancient “Adam and Eve” were descendents of a common ancestor with other primates. Or I would have to believe the omphalos theory – i.e., God created that single pair to look as if they evolved from earlier primates.