I've read elsewhere, and I am having some experiences myself with El Capitan and InDesign. I am not interested in Adobe CC, as I am at this only part time, and do not need the bells and whistles that CC provides. But I rely on InDesign a lot, and now it's doing very odd things. Highlights turn into instant deletes, it crashes, and a few other oddities. I just downloaded Java 8 but it doens't seem to help. Can I keep CS5, or just upgrade to CS6?
CS6 is no better with El Capitan. Roll back to your earlier operating system.