Chris, thank you for sharing your experience. I also experienced something similar.
It started when I was a teen, playing steel-string guitar with the youth group at our church. We had to change a lot of keys, so I ended up playing a lot of bar chords. I started having pain in my left hand. I didn't know I should not play through pain, so it got quite bad.
Later, in college, in my second year I think, I was working on Bach 996, and in the Prelude and Presto I had similar problems. I had just gotten a new guitar, and the action was quite high. I didn't care to stop and adjust it - I was just too excited with my new guitar. I experienced some problems then, too.
I thank you for sharing your experience, and also thank you for giving the two book titles. I will try to get them.
I want to encourage you not to give up. I am sure you can work your way through this. I have. With patience and the right type of practicing, it can be done.
Good luck to you.