I suspect your wife's parents are already encouraging her to leave you on grounds of "spiritual endangerment." That's a Watchtower contrived excuse to "allow" a couple to separate when neither has committed adultery but one has seen behind the curtain and no longer wants bow to the self-appointed GODs (Guardians of Doctrine) in New York. If your wife does leave, it exposes your child to enhanced indoctrination in Watchtower cult-think without your being there to intervene. That kind of pressure can have a devastating effect on her freedom of thought and reason and her development as an independent-thinking adult capable of making her own decisions based on facts and not superstition.
Separation like this often leads to divorce. The "faithful" mate (usually the wife) simply waits out the "apostate" mate. Eventually, nature will win out and now the JW can get a "scriptural" divorce and be free to remarry. This often leaves the other (usually the husband) on the hook for alimony and child support even though he has little or no opportunity to counteract the insidious effect of Watchtower propaganda during his child's most crucial formative years.
I know it's none of my business, but this is what I would recommend, based on my own experience:
Before this happens, demand that your wife return to you in accord with 1 Cor. 7:13.
New Living Translation
"And if a Christian woman has a husband who is not a believer and he is willing to continue living
with her, she must not leave him."
Don't attack her religion, or give her any reason to feel her faith is "endangered." The Society says that even a disfellowshipped mate is to be rendered the "marital due," so how much more so a mate that is simply inactive or disinterested. So show her even more affection and let her know your feelings about her religion have no effect on your love and appreciation for her as your wife.
You would be entirely within your rights as "head of the household" to limit your child's exposure to the Truth™, ranging from outright forbidding any discussion of it in her presence to simply not requiring her to go to meetings or in field service if she doesn't want to. You could also forbid her to be baptized before she is a legal adult.
For what it's worth, this exact situation came up when my son was young. I took the moderate approach of requiring him to accompany his mother to meetings out of regard for her feelings, but not out in field service unless he wanted to go. No one was allowed to "study" with him except his mother. I also absolutely forbade his getting baptized before he was 18. He never attended another meeting after he turned 18, except for a couple of Memorials as a special favor to his mom. Now he's an educated, successful adult who can think for himself. I know that's what you want for your child, and here's proof it can be done.
However you decide to approach this, and whatever happens, please know that you are not alone and we are all rooting for you. Good luck!