But why bring up the Catholic Church's role in witch-burning as if they were the only group involved? I don't think you thought that particular crime against women all the way through. It was not primarily a Catholic Church vs. women crime. Nor was there any attempt to ever hide it, not at the time or afterwards. It wasn't a part of any cover-up culture.
I disagree that the Catholic Church is built on misogyny, that hatred of women is its foundation. That is a very broad overstatement of your case although I agree a degree of undiluted misogyny exists in the institutional church. It is undeniable that women's role in the institutional Catholic Church remains peripheral despite Vatican II and Pope John Paul II's official Church apology to women. The Church has a lot of unpalatable history to face facing it has been accelerated in the last 10 years or so, and a lot hinges on how it deals with the challenge now in progress. I think it was John Paul II who said, "An excuse is worse and more terrible than a lie, for an excuse is a lie guarded." Hope they take that to heart and apply it to the current situation. Lies guarded...
I worry I will be shot down in flames if I try to point out that up to very recently misogyny was pretty much one of the mainstays of general western culture (I can't speak about other cultures) shared equally by all churches and denominations, and even by those who professed no religious allegiance at all. Feminism has made inroads into public consciousness only relatively recently, and huge challenges remain to be overcome.
'Women have to submit and participate to survive.' Submission and participation with varying degrees of spiritual/intellectual/emotional engagement are what churches in general offer to all. In the case of the Catholic Church, the idea of eternal damnation has always been there -- there are some protestant denominations that focus on salvation vs. damnation too, but the RC Church also teaches that humans are endowed with free will. Ultimately it's up to you to do what you see fit in your own life, with the caveat that you'll answer for your choices.
In Ireland, in the case of the horrific orphanages and the Magdalene Laundries, there was an overlay of class to the Church's treatment of young women and children. (Nuala O Faolain in her first autobiographical book Are You Somebody? describes Catholic Ireland and the question of class very well). My grandfather stood up and marched his entire family out of the parish church one sunday during a pro-Fascist sermon in the 30s (Grandad hated Fascists), and carried on a running feud with the local PP, whom he hated, but never feared repercussions. Reason? -- money. And he was far better educated than the priest.
Again -- 'submit and participate to survive.' This allows no acknowledgement of the religious/spiritual experience of willing participants who see their faith as a journey, not as a sign-on-the-dotted-line, once-off thing. It is also true of the experience of women in the wider world, to a large extent, a world which is dominated by men, with which women (and to some extent non-alpha males) still must make their peace however they can.