Good on you for acknowledging that you haven’t read the whole article. I would suggest you do (OTOH, if you have any illusions about whether prisoners are treated with even minimum standards of human decency which you would like to keep, maybe don’t.)
You’re right that the examples Cory chose to quote showcase active malice rather than neglect and incompetence but the article has plenty of those as well.
However, they all provide excellent examples of the overall point which is that the prison system not only does not care about keeping inmates safe and alive, it often actively seeks to harm them.