The master bedroom thing wasn't a good move on your part.
Take it back, change your mind, don't be the nice guy, show that your needs & wants are just as important (actually more important).
And if she doesn't like it, too bad, since when do you care what she likes? She doesn't care what you like - you're getting separated and possibly divorced - do you like that? Does she care?
I am not out of the master yet. She was going to take the master when we move or after we find out if we can stay in this house.
How do I justify taking the master bedroom. She says she makes more money. which is true and if I want it, I can pay the higher amount. I cant afford that right now. Hard for me to justify it.
Who cares if she makes more money? I don't and you shouldn't either?
Who is quitting the marriage/relationship? You or her?
If she wants to quit the relationship, she can bunk up in another room - the master bedroom is yours. Start showing to her that you have value by believing you have value - you do this by telling her you just won't accept what she dished out to you and be content with it. You take the bedroom because it's what you want - you don't care if she makes more money. She made the decision to quit the marriage, she then has to accept consequences just like you are having to accept consequences.
Taking the bedroom for yourself shows that you value yourself and what you want in life. Taking 2nd best and hand outs displays that you are glad to accept 2nd best or worst - start communicating differently (without words).
Take the master bedroom.... please!!!!
Seriously bro, 180!!!!
Start doing differently from what you were doing before - this quiet Mr.Nice Guy routine isn't working for you - it won't work for you in the future, do different now and stop reasoning why you should or shouldnt - just do it!!!!!