I'd look at it this way. Smoking is advocated against by the AMA, etc as well. Studies show it is harmful to people, including children. But the doctor isn't going to report you to DSS for child abuse because you smoke.
Everyone should remember that while, as a forum of responsible firearms owners, we often have a "us against them" mentality, the fact is that not everyone who isn't a firearms owner is out to get us. That includes doctors. Doctors aren't going to report anything unless they truly think that there's a potential for abuse, because its more of a PITA with paperwork, etc for them. For compliance with regulations like that, the majority of doctors are going to report only if they really feel they need to cover their ass legally in case something does happen.
YES. Which means that we need to let them know that we have firearms, sre not ashamed of it, and our kids are not offing themselves or shooting through schools.