The stress response that includes expression of error prone DNA polymerase is about as good an example as one can find of what Shapiro is talking about when he says....
“Novelty in evolution comes in part from genome changes that are the result of regulated cellular activity”
Regulated cellular activity = the stress response.
Genome changes = the result of using error prone DNA polymerase instead of the usual high fidelity DNA polymerase.
Novelty in evolution = a novel solution to the stress brought about by increasing genetic variation and allowing selective pressures (stress) to act such that particular genetic variations (those better able to thrive during the stress) predominate.
Well, that is a new one. A Darwinian agreeing with Shapiro. But Shapiro only gives selection a minor part in the scheme of things. The novelty has been achieved by the cellular response. Selection only gets rid of deadwood. Further, Shapiro's whole point denies what you are attempting to promote when you mention error prone DNA polymerase. That is, the process of innovation in the cell is an accidental process. Shapiro argues against that view. Error prone DNA polymerase is only one of a set of tools used by a "computing" cell. And in another post you asked where the cell keeps it bag of previous mutations. It keeps the previous mutations in pseudo-genes and other apparently unused portions of the genome.(Shapiro's R/W memory). It is the totebag. Did you see the araB-lacZ fusion in slide 22 in the "works of the mind" pdf? Why the substantial difference in response between the MCS1366 and MCS2 variants?