Logging for agents

Use packages/cli/src/utils/logger/ for all terminal output:

• Standard levels: logger.info, logger.warn, logger.err.
• Presentation helpers: detail, plain, primary, decorative.
• Run-aware logger: prefer loggerFor(ctx.run) in command flows.
• Policy gates: honor policy helpers and run flags so quiet/silent/json behavior stays consistent.
• Errors: report user-facing failures through logger + command exit codes; avoid raw console.*.
• Reports vs logs: logger is for terminal UX; report files are emitted via packages/cli/src/utils/report/.