I don't think the issue is that it's another blip, or losing number 2. Like you say, he will be back there soon without much fuss. The disappointment here is that it's basically crushed any and all expectations of any success on clay. He seems further away than ever, whilst being, overall, a better player than he's ever been. I, like many others, thought he was ready to finally make a good run on the surface this year. It might be time to accept that, for whatever reason, he's just never going to do it on clay.
I too thought he would be a good contender on clay this year especially with Lendl to help - maybe he's not quite there yet, so many things with Andy seem to be 'just round the corner', except for Olympic Gold and USO and the many displays of obvious sublime talent. He's Andy - not Rafa or Novak - just our Andy.