Well, my reply would be that, if he intends to comply with Obamacare and plans to do MU then he will in all likelihood HAVE to change some things. The one thing that is for sure is that NO EMR will ever fit any doc's style completely. Unfortunately, the doc is the one that will have to do the changing. Otherwise, he might as well stick with paper and forgo MU.
We're about 75% compliant with MU already, so going backwards isn't an option. I have to be the messenger who gets shot in this scenario! (The IT guy generally is).