In my opinion choice vs non-choice isn’t really the issue here. At the end of the day those who really don’t want to vaccinate will probably have their way. As WillFarnby says we won’t be strapping kids down on tables or isolating them in bubbles. Great American freedom allows people to be stupid with themselves and their families and we have to suck up and deal with it. The main goal should be to try to reduce the number of people who behave stupidly (ideally not through Darwinism).
Which brings us to what I consider far more dangerous about Trumps endorsements. By putting Anti-vaxers in charge give credence to their movement. If the government seems divided on whether vaccines are harmful or not, then many more people are going to start ignoring the science. Worse yet if it becomes a partisan issue like global warming, then a good 40% of the population will see it as their patriotic duty not to get their kids vaccinated. Just like the terrorist win if your pediatrition is allowed to ask if you have gun. This is when you get the real wildfire epidemics, not when its just the 7-10% who are kooks.
Also when you have a head of the vaccine safety committee isn’t willing to believe studies proving safety how do you get new vaccines approved. If you come up with a Zika virus vaccine, how can you prove that it doesn’t cause Microcephily if you don’t believe in scientific studies.