Does that make a difference in this context though?
I would hope clear thinking and logic always matter in discussions. But it could be that I'm too used to discussions about atheism boiling down to people conflating "doesn't believe god exists" with "believe god doesn't exist" or making similar mistakes. What really matters is that the article is just simply wrong. It is absolutely not true that in "[n]o ideas, religious or otherwise, get a free pass" in the sciences or that "science holds no idea sacred". Nor is it true that "the more we learn about the universe, the more purposeless it seems" (actually, the opposite is true). Also, the "[f]ive hundred years of science [that] liberated humanity" were intricately linked to religion:
Galileo and the Origin of Science
Ideology is ideology. I don't care if it is religious or not. If the 20th century showed anything, it's that political ideologies can be just as destructive as religious. I am wary of, and tend to find worrying, any militant doctrine/ideology/belief system, be it religious, atheist, political, environmental, economic, etc. There are enough scientists who adopt militant attitudes which hinder scientific progress without encouraging a wholly specious and irrelevant additional stance on religion. For one thing, it results in articles by a "militant atheist" entitled "All Scientists Should be Athiests" in which we find the author saying that no idea gets a free pace; this means that atheism shouldn't get a free pass but subjected to the (inaccurately described) scientific process. Only the author asserts that "commitment to open questioning is deeply tied to the fact that science is an atheistic enterprise." So atheism doesn't just get a free pass, apparently it is the foundations for the sciences (it isn't, as science emerged out of a particular set of sociocultural conditions that relied heavily on the Christianity of the time).
In general, I'll admit that I would prefer working with scientists who are militant atheists rather than fundamentalists, and that I believe science to be sufficiently ingrained such that it has long sense shed the need for the religious impetus underlying its emergence. I gladly admit that the relationship between science and religion is now mainly one of religion trying to be consistent with science. And I certainly agree with the authors opposition to Kim Davis' actions and agree with his support with gay marriage. But I very much disagree with the clear hypocrisy of a cosmologist (these are they guys who get as close religion as is possible, and it is in cosmology that we find anti-religious bias motivating untestable theories alongside equally unscientific motivations) who states that science doesn't privileged any idea whilst asserting that it is an atheist endeavor.