It could honestly be that she's embarrassed. When she fully gets out of the fog that she's in, and OM is finally behind her, I think you'll slip nicely into a regular marriage. It takes time GH. She has things to work through. Are you still being confident in yourself? Being comfortable that you'll be okay? Then let it play out.
Have you been to counseling with your wife? I do think that you need to continue to take steps to divorceproof your marriage. Also, if you haven't read the 5 love languages, I'd recommend that you do so, and start speaking frequently in her love language. When things seem reasonably good (although not perfect) like now, it's a good time to keep showing her love...backrubs, gifts, just because nice gestures, compliments, acts of service, showing that you value her.
P.S. I agree with Brandon's comment above.
You cannot be lonely if you like the person you're alone with. Dr. Wayne Dyer