1. actually, we NEVER saw itachi's eyes when he did mangekyou sharingan until that latest flashback of him. don't include what we saw in the anime, it doesn't count. so the manga is hasn't gone through any rewrite there.

2. why would'nt jiraiya want him back after that? jiraiya is a typical protagonist who is like naruto. always wants to be positive and optimistic. always believing that everyone can be saved. so, it hasn't been rewritten.

EDIT: response to below:

it makes perfect sense. jiraiya thinks everyone can be saved just like naruto.