Once I worked at a place that had its own in-house project management software. It actually worked rather well. Part of the problem is that every company has its own process and Jira and the like try to accommodate all of them and it ends up being a jumbled mess that doesn't fit anyone's actual process. It's like trying to fit a tesseract-shaped peg into a round hole. But companies don't like to spend money on developing their own software so that's what we end up with.