Hi Sanchy and welcome!
May I offer a woman's perspective? Your wife has a lot on her mind with a toddler and new baby almost here. Between you stepping down, expressing your doubts, a pregnancy, and a young child to care for her stress level is probably high and her energy/ability to deal low. Do your best to support and love her and throw yourself into fatherhood, now you will have the time to do that since you're not wasting so much time on being an elder. What you do and how you treat her will go farther than poking holes in doctrine. Many JWs in the younger generations (I'm 40) seem not to be concerned with doctrine, it's about family, social, and hierarchy. But if you do talk about something--go SLOW!
I was aware of the 607/1914 error for 20 years before it bothered me. I was aware of child abuse issues before I had my babies and it bothered me, but not enough to leave JWs. Once I had my children, I could not stop thinking about it. One day hubby and looked on the jw.org site news section and the Candace Conti verdict was posted! The next day we returned to the site to show my mom and it had been removed! What? So then I scoured the Internet to find more about the case and Pandora's box was open. From reading the all the media and court case info I could find it was beyond clear that the WT does not care about damage done to children from abuse nor do they protect children, or even do the right thing after the fact by reporting to authorities.
You are in a unique position to share some insight with your wife, since you were an elder with the inside scoop on how child abuse is handled. You can let her know you couldn't in good conscience administer or back up WT policies on child abuse. And you don't have to show her anything apostate. There seem to be news articles every couple weeks about some JW perv.
Again, I would stress not to make big issues right now. Just take a deep breath, love your wife, and your sweet babies.
Wishing you all the best with your family!
EyesOpenHeartBroken