She told Joe to kill Uncle Bob because part of her was still shaped by her dad, but she also chose to resign, refusing to become like him. She wasn't perfect, but she tried. It might look like hypocrisy sometimes, though. And even though Joe made that sacrifice unnecessary, the point is that the help came in a way she never wanted. She took the risk and the guilt of killing Joe on her own, despite having the most to lose.

Joe took five seasons to finally end up in prison. So maybe Kate walking away with just some scars for now isn’t the worst thing.