@Aaron **********
then as far as I know you cannot apply for a yearly extension because you ran on overstay (even though you were allowed to and there was no fine)
All you can do is go out to the immigration office you use with your thai wife and children and see what they say about it .
As I said, it is my understanding and experience that if you took the amnesty you can't do it, but it's 100% up to the immigration office