IMHO, the Little Lehigh has bigger issues than the hatchery, which has been there 100 years +. I don't know if any hatchery changes recently have made the situation worse. New food? Medications or drugs?
However, I don't think the hatchery should get a pass either. I do a lot of macro-invertebrate sampling below the NJ trout hatchery on the Pequest and the bugs are definitely degraded below the hatchery outflow. Lots of midges, planaria worms, and horse or deer fly larvae. Few mayflies and no stoneflies. Comparable stretches of local trout rivers are loaded with golden stones.
Unfortunately, we have seen a drop in sulphurs and hendricksons over here that troubles me. The stock answer is siltation of the gravel bottomed riffles that the ephemerella species prefer, and I do see the drought/flood yo-yo of late adding silt to the riffles. I still have an uncomfortable feel about it though.