1. Lynn Margulis is an evolutionist. That, in fact, is her scientific profession as a practicing university biologist. With her collaborators she has devoted decades to studying the life forms that 4.6 billion years of evolution have brought forth on this planet, in an attempt to usefully categorize them. That work stands or falls, in part or in whole, on its own.
2. She considers natural selection to be an undeniable, self-evident process arising from the fact that life gives birth to many more individual organisms than nature can possibly sustain and allow to reproduce. Its effects are obvious in microevolution, i.e. the frequency of given traits within a species, and in advantaging given species within a niche or habitat.
3. She hypothesizes that the additional, most important mechanism of macroevolution and the genesis of new species is symbiogenesis: the symbiotic acquisition of genomes or parts of genomes from other species. This also advantages given species within a niche or habitat, she would say. No one denies any more that symbiotic absorption of portions of other genomes exists; she would however ascribe it to it a central role in species genesis, and that is the crux of her disagreement with the mainstream of the neo-Darwinian synthesis.
4. In her early career she was first to advance the hypothesis that organelles such as mitochondria began as independent species absorbed by larger cells into a symbiotic arrangement that was then propagated in all future generations. She predicted, correctly, that mitochondria would be found to possess their own DNA, and that other DNA would be found outside the cell nucleus. This early work (which clearly informs her more current and broader hypotheses on symbiogenesis) met with mockery from many members of the academic establishment of that time. Ultimately it was accepted as self-evident. It revolutionized biology and was a great service to science, something which can be said of very few cranks. It makes her into a titan, even if she might be a crank in other ways.
5. She remains one of the most successful scientific revolutionaries of the last century, in the league of Einstein or Watson and Crick, even if she turns out to be wrong about anything or everything else she hypothesizes. In fact, that's all right too. Science is a robust practice for proving hypotheses are wrong. Imagine Lynn Margulis never got anything wrong in her life, but also didn't formulate the hypothesis of symbiotic absorption of organelles, for which she is celebrated today. Would that have been preferable?
6. If cranks, creationists or New Age religionists hold up her work or her hypotheses falsely in support of some faith-based and unscientific assertions (unscientific = impossible to falsify, for example a hidden god or inferred designer), that's on them.
7. Lots of great scientists who advanced scientific knowledge in one way turned out to be cranks in some other way. That's all right. It may even go with the territory. Perhaps we can be more forgiving, without needing to accept every idea that seems insupportable to us.
8. Again, none of this makes anyone else or any other scientifically hypothesized idea right or wrong. Each stands on its own, against the criteria of falsifiability and repeatability. If you read what she says and writes, she wouldn't have it any other way.
9. In that thread I specifically cited her views, as a practicing and funded scientist, on the sociology of science as an organized human pursuit:
Scientists in general need funds. An aspect of science that is less true of the humanities or arts, is that they must chase money because the rate of cash flow must increase to increase research activity. Scientists almost always need equipment, materials, man-power, in short, money. All except some theoretical scientists need money and, for research results to be accurate and meaningful even the "theoretikers" must work with experimentalists who always need money.
So the economic system to me is such that university people, like most everyone else, maximize the rate of cash flow per square foot of institutional space. That is the main pressure. Scientists, like anyone else, follow the money flow. Many are entirely honest about it. Some of them will make bombs. Most won't go that far. The humanities and philosophy scholars receive far less public and corporate money because, in general, what they do is not perceived as practical. All they do is make books and teach esoterica to students.
This also doesn't make anyone right or wrong in itself, but I'm wondering if you might comment on it.
Thanks!