Because it’s precisely neo-Darwinism which is falsified if organisms can rewrite their own genomes in response to environmental stress. “The modern theory of evolution” may allow things that neo-Darwinism did not.
Does Shapiro agree with this? If so, then I agree that the departure from mainstream thinking is not as great as he makes out. If not, you and Shapiro need to have a talk about what the data indicate. That’s a conversation for you two scientists. I have no opinion on the matter, as I haven’t studied the bacteria in the lab, the way Shapiro has, and the way you presumably have (or presumably you wouldn’t be correcting Shapiro).