I work in Medical Research so I'm not a doctor or nurse, but I do work for a hospital system. Most of the people I work with would probably be considered somewhat crunchy. Most breastfed, about 1/2 had natural childbirth, several co sleep, I'm not the only one who made my own baby food. Now all of us do vaccinate (though not necessarily the flu shot), most did circumcise but I live in a very high circ. part of the country and most of them are open and interested in my reasons for leaving my son intact if the issue comes up.
I guess it kinda depends on what you consider crunchy/AP and on what your lifestyle priorities are. If you are anti medicine yes you are probably to crunchy to work in the medical profession. As long as you see a genuine need for medicine then I think you can find a place in the medical professions.
Most medical professionals have to learn to accept that different people live their lives differently and that that is okay. You will have to treat patients and deal with families with very different values than yours, but as long as you can be okay with that I think you'll do just fine.