I think there is a duality here that often goes without saying, but might need some saying now...
God ordains all things, for instance, my birth and existence. So much so that he can claim to have knit me together in my mother's womb. That being said, God often accomplishes his will by the means of the laws (the system) he has set in place. So I can say BOTH that God created me, and that I was born of my parents by natural means.
Different topic, but consider... God ordained that Christ would die one the cross for our sins, yet the catalyst for that path was indeed the free (in whatever sense you take this term) actions of those who desired to put him to death. There's mystery here!