I have long believed this was the real truth, but don't see the military's actions as being wrong.
The minute that plane was in the hands of the terrorists, it became an enemy missile, and the American inhabitants inside were collateral damage, an accurate, if dismissive, description of their role in the big picture. The plane had to come down; otherwise the lives of those present at the target site as well as the plane's passengers, were in danger. And it had to come down in an area where the least damage would be inflicted on civilians on the ground.
We can't second guess our government at every opportunity, otherwise we effectively neuter them at keeping us as safe as is reasonably possible.