Well Fred I am afraid that I have to point out to you that insisting that you would have done it another way does not render a different approach WRONG.
Instead of insisting that they Nilson and Pelger are wrong because they didn't do it YOUR way, how about explaining what is wrong with the approach they actually used.
I'm still waiting for him to explain why he thinks that the RNA editing convergence is a problem for reconstructing phylogenies when the text he's quoting says that "Particular RNA editing systems display a narrow phylogenetic distribution..." and to show his evidence that Avida relies on what he calls truncation selection. I've been waiting over two weeks for the first of these.