hermes - 💡(How to fix) Fix 🔧 run_agent.py: Replace 242 print() calls with proper logging

Severity: Medium Component: Core Agent Priority: P2

Problem

run_agent.py contains 242 print() statements instead of using the configured logger (logger = logging.getLogger(__name__)). This pollutes stdout and bypasses log level control.

Evidence

• 242 print() calls detected
• 147 TODO/FIXME comments (technical debt)
• 4 large functions (>100 LOC), including _qwen_portal_headers at 14,469 lines (code smell)

Impact

• No log level filtering → debug prints leak to production
• Inconsistent with rest of codebase which uses logger
• Hard to debug in production (stdout mixed with tool output)

Suggested Fix

Replace all print() with:

logger.debug(...)  # for debug messages
logger.info(...)   # for informational
logger.warning(...) # for warnings

Files

• run_agent.py (lines scattered throughout)

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