I can certainly see problematic aspects of Tyson's presentation, both in this episode and previous ones. But while it may communicate a somewhat distorted picture of the history of science by greatly downplaying Christian influence (not, however, as much as Sagan did), it may also clear the ground by getting rid of some bad theology. In particular, it may help to eliminate the notion that we are to learn about God first of all from the natural world. (Yes, I know Romans 1 and I also know that those who cite it in support of natural theology don't understand what Paul is saying there.)
Yes, Newton was a Christian, albeit an heretical one. Yes, he did think that we are to know God from the natural world, as he says in the General Scholium of the Principia - and he was wrong about that. Yes, he thought that God occasionally stepped in to correct the celestial mechanism - and Laplace and others later eliminated the "need" for such intervention. & while the cartoon portrayals were - well, cartoonish ( I don't think they had to model Hooke on Gollum), Newton throwing Hooke's portrait in the fire did convey the arrogance and self-centeredness of his character - something that was shown more fully in his treatment of Leibniz.
& I thought it was interesting that nothing at all was said about Halley's religious beliefs - which apparently were atheism or something pretty close to it. That should be noted by those who think that Tyson i promoting atheism.