God doesn't exist. By saying that your question is meaningless.
BUT, if you were to assume, like Crono, illogically that God does exist then we have several options. Assuming god is omnipotent and omniscient, he must of known about it from the beginning. Thus, he could of stopped it, but he didn't. Which means he is by human standards evil, or simply doesn't care. However, by most world religions, God is "perfect" and not evil. He must not care then, in "his" view, humans are just another life form, not much too look at. "He" has better things to do.
Then again, if you believe in god in the first place, you must have dumped all common sense and logic away into "faith". And with "faith" you can believe in practically anything, like Crono, who believes God MUST of not intervened, because if he did, something worse would of happened than millions dying. That, or everyone one of those millions are sinners. Or even better, God is so powerful, and his logic so great, it is inconceivable to any human.