It takes time to come through this, man, it took me 6 years to finish, but I did, and your wife will, too. I came out at 41; I'm now 43...and the times weren't easy for me, either, watching my husband be miserable, because he did NOT understand what was happening with me.
It's hard not take her comments/spewing personally; just leave her alone as much as you possibly can..the LBS seems to be ideal for the MLC'er to spew at, I think it's because they are THERE in a way no one else would be.
With this being an emotional battle, it is very hard to understand what they are about, and there are many questions you will never have answered.
Let her go, let God do His work on her. She is the only one who can navigate through...nothing you can do to help her.
Take care of yourself, you are most important right now, you and the children.
Back and forth she goes within the tunnel. Detach more and keep giving her room to process herself as she can.
Take care.
Remember, as each person is different, every MLC/Transition is different..what works for one may not work for another. Most of the time it is trial and error for ALL involved.