In this universe, civilizations with beliefs can be broadly classified into three categories.
The first kind truly has the protection of their True God, such as the Yajinians who believe in the Elemental Spirits, the Holy City that believes in Heaven, or the Empire that believes in Sigma, all of which are truly under the protection of some deity. Dealing between these civilizations is relatively easy, as long as their respective deities can come to an agreement, their followers would be at peace.
The second kind are atheistic civilizations that do not believe in deities. These civilizations generally do not conflict with civilizations that hold beliefs, as they consider the gods of the believing civilizations as transcendent entities beyond dimensions. They admittedly acknowledge the power of these entities, but they do not worship them as all-knowing or omnipotent gods who created the world.