O - IMO your W is occupying way too much of your head space for a journey that you have been on it looks like for over 4 months. It appears to me that your trying to hang on to anything to make sense of what just happened, anything so you can regain some control.
You have to let go and free fall if you don't your journey will be rough. You have to get out of her wake....don't ride in it....the water is too rough. Take your boat off to the side in calmer waters. It will do you wonders.
If she has no interest in speaking with you then I would make no attempts and move forward with your life. She is also with OM which should further drive this home. Looks like your young, only married for a short while and she found something with this new job of hers. FWIW the same thing happened to my W when she switched jobs. Obviously there is something disconnected with your W for this to occur in the short amount of time you have been together. Like AS said this appears to be more about her than you.
Are you fit? Healthy? Do you look good? What have you done for yourself? What will she see the first time you interact with her since January?
If you don't want a D then don't push the issue. That is a personal choice. It is concerning that she has went to all these lengths to hide her pregnancy and TRO with you not doing anything wrong. All of it just doesn't make sense to me which should hopefully help you realize that this is more about her than you. You should also question whether or not you even want to be with this women after all of the accusations she has made combined with the OM would be too much for me to overcome. Again this is a personal choice.
IMO if you don't want a D don't file or push it forward but you have to move forward with your life, enjoy the time with your son and be the best father you can be. Let your w take her journey, don't check out FB, don't like stuff, don't stew over the jacket, don't sweat the small details, don't send her a letter.....doing nothing is still taking action.
Truthfully being separated is the best thing that has happened to you.