Are there any "problems" with the ToE that are generally not addressed?

Some good points:"Domain shuffling aside, it remains a mystery how the undirected process of mutation, combined with natural selection, has resulted in the creation of thousands of new proteins with extraordinarily diverse and well-optimized functions. This problem is particularly acute for tightly integrated molecular systems that consist of many interacting parts, such as ligands, receptors, and the downstream regulatory factors with which they interact. In these systems it is not clear how a new function for any protein might be selected for unless the other members of the complex are already present, creating a molecular version of the ancient evolutionary riddle of the chicken and the egg." - Thornton and DeSalle, Genomics meets phylogenetics, Annual Review of Genomics and Human Genetics 2000, p. 64Robert May is a UK Chief Scientist. In New Scientist magazine ( July 1, 2000 ) on page 5 he stated, "We share half our genes with the banana." This is an important quote, because it shows the evolutionist argument of 'people having 98% the same DNA as a chimp' (we don't) to be without scientific merit.