I can't say what I saw of fab production in Boise made it a "bad job", but like anything, there is a range of experiences. I've worked in a variety of manufacturing environments, and while clean rooms are certainly different than the others, I'd probably prefer it if I were a production employee. Personally I'd prefer it to cutting protein, but different strokes for different folks.
Overall it looks like Micron is taking a hit, given that they bought Intel's 49% stake for 1.5 billion less than 3 years ago. https://siliconangle.com/2019/01/15/micron-buy-intels-stake-...
Semiconductors inherently have a plethora of harsh chemicals involved. The country as a whole did a terrible job with waste management until we {society} got serious about not being absolutely awful to the environment. There are many waste sites which were never really documented, the environment wasn't considered when selecting them, etc. If that was the state of affairs at the time, it's not surprising that there are superfund sites at former clean rooms.
It does become difficult applying current standards to past actions. The condoned practice for certain categories of chemicals was to bury them. When those best practices are changed, you can't reasonably just dig it all up and deal with it. Digging it up is sometimes more hazardous to the environment than leaving it be. Some manufacturers have teams of contractors on site dealing with legacy waste issues. They're conducting and reviewing soil and water samples, reviewing drawings with known dump sites, water monitoring, etc before allowing any dirt to be moved.