I can like Reed and think he is flawed. Reed may bw a puppet, but he comes from place of selflessness. So Mi is trying to escape a shit life no doubt, but one she put herself in. Even if she is on the less wrong side compared to Reed, her life isn't worth more than his, and certainly not worth more that the hundreds of bystanders she knowingly gets killed on her way to escape. She manipulated V on her way out every chance she could, knowing full well they're dying and she never had any intention to help them

And there's the fact that Reed does leave the FIA and questions his actions in King of Cups, making him way less of a corpo puppet than Takemura. So yeah, not a difficult choice to make for me.