SOLUTION TO THE PROBLEM:
Make 'em all wear a Helm of Opposite Alignment. As a cursed item, you could buy them for cheap as defects from a magic item plant. Since the outlook is mental, too, the Kobolds enjoy being chaotic good and will raise their children as free-spirited benevolent spirits. Kobolds make the save? Take the hat off and put it back on until they fail their save.
Kobolds become liked by the community, bloodshed is minimized to a couple of days of captivity, and they get cool new hats out of it as well.
