https://en.wikipedia.org/wiki/Neocortex
It clearly states:
> The six-layer cortex appears to be a distinguishing feature of mammals; it has been found in the brains of all mammals, but not in any other animals.
What it evolved out of is entirely irrelevant -- everything evolves out of something else in some fashion.
The reptilian equivalent to the neocortex is the dorsal ventricular ridge which evolved separately and in parallel. This presents two problems to the hypothesis: first the much simpler DVR serves much of the same purpose as the neocortex which was completely unknown at the time and second the most interesting bird species (the smartest ones) often don’t have an equivalent structure at all. There isn’t even a clear relationship between intelligence, complexity, evolutionary age, etc. After 250 million years of evolution any similarities are accidents of random convergence.
It seems like this is what they are refuting. It is not so much a new layer as it is an evolution of existing structure.