I agree that there are such differences. Indeed, I wrote about them recently in criticizing Tim Andersen's attempt to reconcile science and religion (link below).
My point here is that all worldviews and cultures have some nonrational foundations. To that extent, secular and religious societies will be similar. But nonrational foundations aren't all equally useful or otherwise meritorious. So we can judge the strengths and weaknesses of different kinds of societies and worldviews.
I suspect that secular and religious outlooks have different social functions. Secularism is about humanistic progress, while theistic religion is about social control.