Reapply "CRITICAL FIXES: Apply essential improvements from beta branch to production"

This reverts commit e5979a501e.

launcher.sh

@@ -53,7 +53,7 @@ run_module() {
         echo ""
         echo -e "${RED}✗ Module not found: $category/$module${NC}"
         echo ""
-        read -p "Press Enter to continue..."
+        read -p "Press Enter to continue..." < /dev/tty 2>/dev/null || true
         return 1
     fi
 
@@ -74,7 +74,7 @@ run_module() {
         echo -e "${RED}✗ Exited with code: $exit_code${NC}"
     fi
     echo ""
-    read -p "Press Enter to continue..."
+    read -p "Press Enter to continue..." < /dev/tty 2>/dev/null || true
 }
 
 #############################################################################
@@ -135,7 +135,9 @@ show_threat_analysis_menu() {
 handle_threat_analysis_menu() {
     while true; do
         show_threat_analysis_menu
-        read -r choice
+        if ! read -r choice 2>/dev/null </dev/tty; then
+            return 0
+        fi
 
         case $choice in
             1) run_module "security" "bot-analyzer.sh" ;;
@@ -169,7 +171,9 @@ show_live_monitoring_menu() {
 handle_live_monitoring_menu() {
     while true; do
         show_live_monitoring_menu
-        read -r choice
+        if ! read -r choice 2>/dev/null </dev/tty; then
+            return 0
+        fi
 
         case $choice in
             1) run_module "security" "live-attack-monitor.sh" ;;
@@ -201,7 +205,9 @@ show_log_viewers_menu() {
 handle_log_viewers_menu() {
     while true; do
         show_log_viewers_menu
-        read -r choice
+        if ! read -r choice 2>/dev/null </dev/tty; then
+            return 0
+        fi
 
         case $choice in
             1) run_module "security" "tail-apache-access.sh" ;;
@@ -232,7 +238,9 @@ show_security_actions_menu() {
 handle_security_actions_menu() {
     while true; do
         show_security_actions_menu
-        read -r choice
+        if ! read -r choice 2>/dev/null </dev/tty; then
+            return 0
+        fi
 
         case $choice in
             1) run_module "security" "enable-cphulk.sh" ;;
@@ -266,7 +274,9 @@ show_security_menu() {
 handle_security_menu() {
     while true; do
         show_security_menu
-        read -r choice
+        if ! read -r choice 2>/dev/null </dev/tty; then
+            return 0
+        fi
 
         case $choice in
             1) handle_threat_analysis_menu ;;
@@ -314,7 +324,9 @@ show_website_menu() {
 handle_website_menu() {
     while true; do
         show_website_menu
-        read -r choice
+        if ! read -r choice 2>/dev/null </dev/tty; then
+            return 0
+        fi
 
         case $choice in
             1) run_module "website" "website-error-analyzer.sh" ;;
@@ -367,7 +379,9 @@ show_performance_menu() {
 handle_performance_menu() {
     while true; do
         show_performance_menu
-        read -r choice
+        if ! read -r choice 2>/dev/null </dev/tty; then
+            return 0
+        fi
 
         case $choice in
             1) run_module "performance" "mysql-query-analyzer.sh" ;;
@@ -473,7 +487,9 @@ show_acronis_menu() {
 handle_backup_menu() {
     while true; do
         show_backup_menu
-        read -r choice
+        if ! read -r choice 2>/dev/null </dev/tty; then
+            return 0
+        fi
 
         case $choice in
             1) handle_acronis_menu ;;
@@ -488,7 +504,9 @@ handle_backup_menu() {
 handle_acronis_menu() {
     while true; do
         show_acronis_menu
-        read -r choice
+        if ! read -r choice 2>/dev/null </dev/tty; then
+            return 0
+        fi
 
         case $choice in
             1) run_module "backup" "acronis-install.sh" ;;
@@ -542,7 +560,9 @@ show_email_menu() {
 handle_email_menu() {
     while true; do
         show_email_menu
-        read -r choice
+        if ! read -r choice 2>/dev/null </dev/tty; then
+            return 0
+        fi
 
         case $choice in
             1) run_module "email" "email-diagnostics.sh" ;;
@@ -573,6 +593,11 @@ init_directories() {
 }
 
 startup_detection() {
+    # Initialize system detection first (required for proper reference database)
+    if [ -z "${SYS_DETECTION_COMPLETE:-}" ]; then
+        initialize_system_detection
+    fi
+
     if ! db_is_fresh; then
         clear
         print_banner "Server Management Toolkit - Initializing"
@@ -608,7 +633,7 @@ startup_detection() {
         print_success "Detection complete! Cached for 1 hour."
         echo ""
 
-        read -p "Press Enter to continue..."
+        read -p "Press Enter to continue..." < /dev/tty 2>/dev/null || true
     fi
 }
 
@@ -622,7 +647,12 @@ main() {
 
     while true; do
         show_main_menu
-        read -r choice
+
+        # Read from terminal (use /dev/tty directly for interaction)
+        if ! read -r choice 2>/dev/null </dev/tty; then
+            # No terminal available, return from function gracefully
+            return 0
+        fi
 
         case $choice in
             1) run_module "diagnostics" "system-health-check.sh" ;;