Generating Harmonies

I have two issues. First, I created vocal harmonies to the chorus of a song. The chorus repeats a number of times. The choruses were copied, so they are exactly the same. I created a chord track and the chords in the chord track were also copied, so they are exactly the same. The first chorus comes out perfect. All the others are not the same and are using notes that are not in the chord track. Second, once the harmonies are created I can not make any changes. They are fixed. Any suggestions.

Buck