The message and moral I took from her stories was essentially pro-human, where the archetypal good is that independent man who creates according to their own taste, without any overlords, and without the approval of others. The greater any effort is collectivized, the greater the sin.
Rand's is a hyper-optimistic view of the individual - it feels like an atheist's attempt to replace God with Man and then posit him as the highest virtue. And in the introduction to The Fountainhead, I believe Rand even said her philosophy was a form of worship of Man. It's foolish because life is much too brutal for man to ever truly ascend that way. In any case, her brand of optimism is so rare, and that sells.
It's so interesting to me that your critique went to group politics and identity, though. Rand was consistently negative about groups and big government cronyism. She treated her archetypes as equally noble whether they were breaking rocks in a quarry or engineering some new miracle metal. Do you view the world through such a group identity lens that you couldn't see that in her writing? It's absolutely plain.
The evil archetypes in the Randian universe are any nullifying spirit, destroyer, or parasite. Remember, these are archetypes, no-one in the real world is so black-and-white. It's not a bad characterization of evil, and has parallels in religion and literature.