Affirm or Deny?

Rushdoony in his classic work The Mythology of Science summarizes the only two options available in the scientific quest:

Men will either presuppose God, or they will presuppose themselves as the basic reality of being. If they assume themselves to be autonomous and independent from God, they will then wage war against God at every point. There is no such thing as an area of neutrality: men will either affirm God at every point in their lives and thinking, or else they will deny Him at every point.