Robust chemical safety systems (both equipment, procedures, and employees) are expensive to implement and maintain, and they don’t scale downward easily. Companies doing small-scale production or R&D tend to have the worst practices.
That said, the findings in this EPA report don’t seem terrible, just indicative of a sloppy small-scale operation. Finding labeling issues is the lowest of low hanging fruit for any sort of chemical inspector, and Apple not being able to manage even that is just sad.