While I agree with your opinion, I'm afraid I can't go with that course of action for one very, very simple reason.
There'd be no story.
I thought about having Xykon use mind control on her, for simple things and the like, but then you have to consider that if Xykon can control her with the little things, he'd just control her 100%. And then you've just got a Miko zombie. No fun. No fun at all...
Also, Xykon asking her to kill the Order of the Stick kinda disproves her perception of the OotS and Team Evil working together. But she has plenty of reasons to hate the Order anyway. They corrupted/worked with Lord Shojo depending on who she's talking to, they caused her to Fall by tricking her somehow in her own mind, Belkar is a being of absolute evil and by default the rest of the Order is evil for working with him, and she'll probably blame them for the loss of Azure City and the destruction of the gate. Why? Because she's crazy, and the best part of writing a crazy character is that you can go anywhere with their thought process and it is still believable to some extent.
But yes, I realize this story has a whole lot of plot holes in it. There will be gags about that, actually. And there will also be a plot device to help Team Evil seem more... relatable, to Miko.