To say Islam is intolerant is to generally claim that Muslims are intolerant. I don't think you can seperate the claim from its implications.

I think it is worth noting that Islam was a liberatory movement in the age of its emergence and continued to be so for long after in many cases. Especially for women. It only became oppressive as it became part of the state. This was furthered by European imperialism in West Asia and North Africa. The Islam you see today can be dramatically different from the Islam of 1850.

Religion is superstructural. It is not the source of misogyny nor is it the source of oppression generally. It can be used to justify these things sure but it is not why they exist. I won't pretend to fully understand the social relations within West Asia and their origin but it is certain that there are material rather than idealist reasons for their current state. Removing the religion would not remove the impetus for misogyny and oppression it would only remove its current justification.

These people must overcome these cultural struggles on their own terms and in their own time while we work on our own as well. The reason I worry about the original commenters perception of Islam is because such perspectives are utilized by our governments to justify imperialist aggression against Muslim majority countries. This imperialist aggression is wrapped in the language of helping their oppressed groups but never does anything of the sort. Cultures do not grow under imperial boots.

The OP was criticizing the religion islam, not muslims as a group, and certainly not making the claim that “all muslims are intolerant”.

Trolls sneering 'wow so tolerant!' could not make that distinction with a gun to their head. At best you get mewling and bickering over the absolute "all" as if it's any better to say "most" and clearly mean "including Moe down the street."

a majority of muslims, globally,
Given that islam has many of these misogynistic values close to it’s core,

This is you failing to make that distinction, yourself.

I am acquainted with a few.

Right, you can say it because you have a black friend. He's one of the good ones.