I see what you're saying, but...
- I don't know that I think one should weaken one's current movie in order to avoid potentially weakening the themes of an earlier movie, and
- The Empire was not just about collectivism and technology, but oppression and tyranny, and having their bid for total power undone because they coerced someone into helping them works for that theme.
The flaw didn't need explaining, true, but I don't really think the metaphor of the original film is really weakened by making a personal connection later. It's still about hubris and the rest of the stuff you described, it just also has another meaning in a different movie.