Dan Slott himself is Jewish and observant I believe. He actually speaks about Marvel and religion in this article for Salon.
(
https://www.salon.com/2017/05/28/doe...all-above-one/) So he's not someone with any agenda in terms of Peter one way or another.
J. M. DeMatteis is part Catholic and part Jewish and in "Soul of the Hunter" he tried to express some of his spiritual ideas, which are also individual and personal.
And again, "scientist" is not a religious affiliation. There are religious people who are scientists. This kind of thinking is inherently right-wing or right-leaning, not to mention profoundly unscientific to say with.
Scientists are human beings and a lot of them can be good at their chosen discipline or field. Ben Carson is a brilliant surgeon but he's also religious. The American physicist Freeman Dyson, whose concept of Dyson Sphere was important for Jonathan Hickman's runs on FF, Avengers and X-Men (Sol's Hammer is an attempt to create one)...is also religious. I can go on.
I say this by the way as an atheist myself. I don't think being a scientist or following any discipline in any field inherently shapes your ideology or thought process. As always individual choice in relation to upbringing, society, circumstances is important. You have to
choose to be an atheist otherwise your society and culture and the level of influence religion has in a given society shapes your attitude to belief for good and bad, and for better and worse.