Does Negima season 2 remove the plot with Asuna that was in the original and if so how much of the plot is changed if you can tell me without spoilers The change has me confused?

Does Negima season 2 remove the plot with Asuna that was in the original and if so how much of the plot is changed if you can tell me without spoilers The change has me confused?
Yes, Negima season two did replace the pilot with Asuna from seasonone.