If that is what he is saying then I think you just need to take his conclusion to its logical extreme to show how much nonsense it is. If we cannot trust our senses then we in fact can know nothing at all.
I don't think that is what his argument is though. It is a little hard to parse and I only ready it once but I think he is saying that the ToE is not internally coherent.
That is, if we are the products of evolution there is no way we could actually have a basis to objectivly claim that we were evolved. It seems like he is trying to do a disproof by contradiction.
I think he fails on one of his base assumptions that objectivity in an evolved consciousness is flawed. Lets pretent that high order thinking evolved again differently in a sea-cucumber, his claim seems to be that what is objective between humans and sea-cucumbers would in be different thereby disproving objectivity, dismantling the basis of "facts" and therefore the only true knowledge we could possibly have is what we recieve by reveleation.
To me, this essentially seems like an attack on our notion of reality. That the only reality we can possibly know is that which is granted to us by God. It is an old argument that falls flat on its face by simply pointing out the fact that even if it is true that we are not observing an objective reality, what we are observing produces effects that are replicable that allow us to manipulate the universe well enough for us to survive.
It doesn't really matter if there is some deep magic in the universe that we cannot understand because of the particular way that our cognition evolved. We understand evolution well enough to have it work for us in the lab to produce effects that we like such as medical breakthroughs, etc. It doesn't matter if the ToE is "objective" in his use of the word, its good enough for our purpose and that is all scientific conclusions claim to be.
Of course, biblical creationists are committed to belief in God's written Word, the Bible, which forbids bearing false witness; --AIG (lest they forget)