Stay the course with the filing. Read the books and get started. Like others have said there are signs she is not ready to abandon the M. Yes, she is angry hurt and very very confused. Thats one of the hallmarks of a WAW. Trust me I know cause I am one of them. Its not an easy road but if you are willing you have a good chance of getting this back on track. Wish my H would wake up and smell the coffee. I even bought the book and read it myself but its aimed more for LBS than WAS. My H refused to read the book (or any others)but I am still open to working on the M. No matter how angry I am or confused I know that D is not what I want in the end.
Give it time, give her space. See how it all washes out.
As for the cats, are you opposed to keeping them while all of this is going on/being sorted out? If she really holds them dear this could be an act of kindness that she would look fondly on. Just an idea.
Me: 30 EX-H: 37 DD: 5 Separated 6/07. MC for months, EX-H quit MC. Divorce Final 8/14/08. Trying to move on with new life.