I think we essentially agree with each other on the first part, the need to combine beliefs and values to ensure religion is accepted.
For the second part, if I simplify your point, aren't these two positions opposite to each other? On one side, there is God saying "believe and obey," and on the other, there's the Scientific Method saying "don't believe, verify." These seem like thesis and antithesis to me. What exactly makes the Scientific Method holy in your eyes?