docs: update Hermes documentation for CLI overhaul

test(cli): fix pre-existing JSON test failures and add testRoot helper

feat(cli): add export, import, logs, and upgrade commands

feat(cli): add completions and init commands

feat(cli): retrofit all commands to JSON envelope + remove writeOutput

feat(cli): gold brand — replace indigo/cyan with gold/stone palette

feat(cli): add --pretty and --yes/-y global flags

feat(cli): add output.go and errors.go — JSON envelope foundation

chore: add golang.org/x/term for TTY detection

docs: add CLI overhaul implementation plan — 16 tasks

docs: add CLI overhaul design — agent-usability, gold brand, new commands

docs: add B2B SaaS modernization architecture plan

chore: update CI, Dockerfile, Settings page, and project config

feat(config): config enhancements and test coverage

feat(server): add logging, middleware, and route enhancements