In the case of the Special Needs babies, I think there should be no question, but allow them the chance to live. I know the worldly view is that they suffer needlessly, or take up too much time and resources, and in some cases, that does seem to be the case. But their have been a lot of children who have made the world better, just by being here. In addition, there have been times that doctors were wrong about tests.
As for women who become pregnant while raped, that's harder. While I could understand why they would choose abortion, I personally don't think they should. No matter what decision they make, it will be a very hard one for them, especially as they are already dealing with the emotions of being raped. All you can do is pray, offer them love, and support, and just be there for them.