Todd,
#1. I will take this suggestion back to the TI-RTOS team.
#2. I didn't need to copy anything. I basically did section 3.3.1 which requires you do go do 3.2 then proceeded with 3.3.2
#3. I didn't need to do this. Not sure why you needed to do this.
#4. 3.3.3 showed up nicely for me. I didn't need to port any files anywhere.
#5. The correct device was already there for me. That's probably because I successfully created a project from the TI-RTOS example where as you are copy stuff around.
I would suggest maybe go through the GSG again and follow it step by step. I haven't run into the issues you have seen. I successfully build a few program including the gpio one for the F5529.
Judah