It took some years (!) to get the achievement of an autoupdater and some people at ED went to great lengths to make the community happy with it. It's not like it's there for fun, it has a good reason. That said, I too sometimes decline an update to have it run at a more opportune time than right before a long-scheduled flight, and it is really nice that this is actually possible. All the flexibility is there and if I wanted, I could update only to 1.2.3, ..4, ..5 and ..6, thereby massively reducing the frequency of the updates. This way, everyone can find the balance that makes him happy.
Edit: Is this the first time that ..6 is mentioned?
Please don't start speculating about its content now ;)