Clean up values.yaml files

[faisal-memon]

The files are getting a little messy and can be organized better.

• Locate all SPIRE related config together and at the top of the file
• Locate all K8s config together
• Add comment header to each section
• Add comments for all SPIRE related config that matches the official docs
• (optional) Nest SPIRE Server config under a server: section