Conscience of the individual

German pilots have grounded more than 220 flights because they were being used to deport failed asylum seekers.

[...]

Between January and September 222 flights were cancelled, according to German government figures, with most – 140 – coming at Frankfurt airport. Others refused to fly from Cologne and Bonn.

[...]

Many of the pilots involved said they wanted no part in sending people back to Afghanistan, where violence is still rife following years of war and occupation by Western forces.

[...]

The decision not to carry a passenger, was ultimately down to the pilot on a "case by case decision", Lufthansa spokesman Michael Lamberty told the Westdeutsche Allegeimeine Zeitung newspaper which originally reported the story.

  UK Independent

Germans learned something from the 40s. Just following orders isn't an excuse.  I dare say you won't find American pilots doing something similar.

...but hey, do what you want...you will anyway.