One of the scenes that bothers me the most is where Anakin states that from his perspective, the Jedi are evil, and then gives zero reasons. But it would be trivial to explain himself.

The Jedi are a religious organization that wields great authoritarian political power, often unilaterally, including later as we observed, political assassinations. They're obsessed with finding people who are chosen at birth and have a policy of rejecting anyone who is too old to be fully indoctrinated.

They're basically fascists. If you ever eliminated the sith, the next thing you'd want to eliminate are the Jedi.

How much more interesting would it be if they actually presented the Jedi, including their inherent flaws?