Looking at it from her point. You never listened to her. She says you argued, then you argued. Not remembering what ye argued about again demonstrates not listening.
If she says you were controlling then to her you were.
You can disagree with her point of view but unless she feels you hear her, no one will win the arguments. You have reflected. Now is the time to DO nit to try.
She is comfortable around you. That is all you can read into the semi nudity. It is better than being uncomfortable but don't mistake it for trust or other feelings. Some Ws use this behavior to check if H is still longing after her. Others are just going about their business regardless of your presence.
I am not trying to dishearten you but hopefully speed up your understanding of some points. Then you can concentrate more fully on what you should be doing.
By the way NC and going dark are not possible living in a one bed appart . Save that for when she moves out. Until then follow the 37 rules, especially no pursuit.
R 25 years M 14 years S11 & S13 Working on it alone since Oct 2014 M in trouble a lot earlier (~2 years) Feb 2016. 1st R chat in a yr. Next R chat Aug'17 Still together