When you look at the universe as a whole as a closed system this is happening to every particle in general. The system is organizing atoms into perfect spheres

When you look at the universe as a whole as a closed system this is happening to every particle in general. The system is organizing atoms into perfect spheres while making heat radiation randomly distributed. There is still a division here, still a form of order and organization happening spontaneously. However this system is still ascending into higher entropy. What is wrong here is your notion of what entropy is. You think that high entropy as something similar to very random but uniformly distributed noise. This is not what entropy is. The definition is more complex and can encompass very organized structures as well.