I didn't read their comment as particularly cynical, and at a high level they're still correct, but so are you.
I think your comment gets at a very specific and subtle nuance that is worth mentioning, namely that typically if you were a proghance purist, you'd have a fallback that did work; a form the submitted normally, a raw table that could be turned into an interactive graph, etc..
I don't think these details are mutually exclusive though, and that it was certainly valid in those days to add something that didn't have a non-js default rendering mode, it's just that it was discouraged from being in the critical path. Early fancy "engineered" webapps like Flipboard got roasted for poorly re-implimenting their core text content on top of canvas so they could reach 60fps scrolling, but if JS didn't work their content wasn't there, and they threw out a bunch of accessibility stuff that you'd otherwise get for free.
Now that I'm thinking back, it's hard to recall situations *at that time* where there would be both something you couldn't do without JavaScript and that couldn't also have a more raw/primitive version, but one example that comes to mind and would still be current are long-form explanations of concepts that can be visualized, such as those that make HN front page periodically. You would not tightly couple the raw text content to the visualization, you would enhance the content with an interactive visual, but not necessarily have fallback for it, and this would still be progressive enhancement.
Here's another good example from that time, which is actually only somewhat forward compatible (doesn't render on my Android), but the explanation still renders https://www.ibiblio.org/e-notes/webgl/gpu/fluid.htm