The WOJ suggested that he gets Orders for that type of thing. But, whether he does it by himself or due to Orders as long as he is an Archangel I'm sure he is in tune with God.
"Archangels get sent somewhere to get a job done."
I took the 'get sent' as the Archangel having been given Orders. This is in the same paragraph as Uriel is said to have "wiped out Universes before."
Actually given the WOJ about Lucifer really not being a threat to the Universe, or much of a threat relative to the Big Bad's, I'm thinking Lucifer doesn't have the power to wipe out the Universe. This means that only God aligned Archangels have this ability. I would bet though, if God gave Lucifer an Order to wipe out a Universe he could do it. Anyways, I believe an Archangel needs God's permission to act in destroying a Universe. It is very likely similar to a Winter Knight power. If Harry tries to cross Winter Law, the mantle leaves him; similarly, if an Archangel tries to destroy a Universe without God permission, his Grace would leave him thereby preventing the use of that power. So, I could see in an instance in which he doesn't exactly fall but is temporarily left Graceless.