Not really sure how you can be so sure about this unless you work for Apple or its one of their official policies that's listed somewhere?
I just know that I was having enough trouble with my cloned MBA drive on a different machine that after a few days of random error messages I gave up, reinstalled the OS, and used Migration Assistant.
I understand that M.A. doesn't grab 100% of a computer's data but I can re-do the parts that it misses pretty quickly.
I know the OS pretty much inside out because it's a unix-based system. Everything else is reconfigurable on-the-fly (such as network/bluetooth interfaces, etc).