Anakin convinced Obi-Wan to turn to the Dark Side on Mustafar, so they kill Palpatine and rule the Galaxy together with Padme. Cody is still Obi-Wan's clone commander. Obi-Wan knows that Cody attacked him because of the chip, but the Dark Side doesn't let him forget the Order 66 anyway. He values Cody, likes him and wants to punish him at the same time. Cody also feels guilty because of his "treachery", so he thinks that he deserves anything Obi-Wan wants from him and he tries to be good and submissive for Obi-Wan.
Dark!Obi-Wan/Cody, d/s
Cody is still Obi-Wan's clone commander. Obi-Wan knows that Cody attacked him because of the chip, but the Dark Side doesn't let him forget the Order 66 anyway. He values Cody, likes him and wants to punish him at the same time. Cody also feels guilty because of his "treachery", so he thinks that he deserves anything Obi-Wan wants from him and he tries to be good and submissive for Obi-Wan.