It is not God of the gaps in one fundamental way. God of the gaps arguments attempt to justify something invisible by saying you cannot measure it. Consciousness is something visible - in fact it's the only thing that's visible - yet we cannot measure it, and likely never will be able to.
As Schrödinger put it: "Consciousness cannot be accounted for in physical terms. For consciousness is absolutely fundamental. It cannot be accounted for in terms of anything else."
Or to take another grand physicist, Max Planck: "I regard consciousness as fundamental. I regard matter as derivative from consciousness."
Now these are people who thought a lot about both physics and consciousness. I think that when we do justice to both sides - the conclusion that one cannot arise from the principles of the other is inescapable. However, when we only immerse ourselves in materialism or only in spiritual new-age philosophies, we miss this scale of the problem of this mind-body gap the article talks about.