Is it at all possible that Jeff Davis' conscription in 1862 (I believe it was) that caused some of this? A few governors in the CSA were dead set against any kind of conscription if I'm not mistaken.
The Confederate conscription was widely resented, especially because its provision exempting large slaveholders lent validity to the charge that the Confederate cause was a rich man’s war and poor man’s fight. And most of the true believers had volunteered early so the authorities were targeting the lukewarm at the time the faith of the believers was starting to waver.