diff --git a/bin/staging_area_monitor b/bin/staging_area_monitor
index 1ed21c40..93e98d34 100755
--- a/bin/staging_area_monitor
+++ b/bin/staging_area_monitor
@@ -55,7 +55,24 @@ sub main {
     while (1) {
 
         _log_noindent($time->());
-
+       
+        #######
+        # find_live finds all run folders in 'incoming and 'analysis'.
+        # It can return two run folders for the same run, one in each
+        # of 'incoming and 'analysis'. In this case the  run folder in
+        # incoming is a 'shadow' run folder, which is sometimes created
+        # by the instrument well after the original run.
+        # 
+        # It is also possible for a 'shadow' folder to exist in 'incoming',
+        # while the run folder with the original data is already in 'outgoing'.
+        #
+        # Depending on how much data is present in a 'shadow' run folder,
+        # the staging monitor might attempt to update the trackign database.
+        # Mostly the values will be the same as for teh main run folder.
+        # However, the actual cycle count might be different. Therefore, it is
+        # important never to upload to the database a cycle count that is
+        # lower than the one already stored in the database.
+        #  
         foreach my $run_path ( $monitor->find_live($staging_area) ) {
             _log_noindent("Considering $run_path");
             my $done;
diff --git a/lib/Monitor/RunFolder.pm b/lib/Monitor/RunFolder.pm
index 5d9dcb25..14cfadbe 100644
--- a/lib/Monitor/RunFolder.pm
+++ b/lib/Monitor/RunFolder.pm
@@ -23,7 +23,7 @@ sub update_cycle_count {
   defined $latest_cycle or croak 'Latest cycle count not supplied';
   my $actual_cycle = $self->tracking_run()->actual_cycle_count();
   $actual_cycle ||= 0;
-  if ($latest_cycle > $actual_cycle) {
+  if ($latest_cycle > $actual_cycle) { # A very important condition!
     $self->tracking_run()->update({actual_cycle_count => $latest_cycle});
     return 1;
   }
diff --git a/lib/Monitor/RunFolder/Staging.pm b/lib/Monitor/RunFolder/Staging.pm
index 3b6802b1..2718c09a 100644
--- a/lib/Monitor/RunFolder/Staging.pm
+++ b/lib/Monitor/RunFolder/Staging.pm
@@ -368,7 +368,7 @@ sub update_run_from_path { ##### Method to deal with one run folder
     }
 
     if ($folder->is_in_analysis) {
-        _log('Folder is in /analysis/');
+        _log("Folder $run_path is in /analysis/");
 
         if( $run_status eq 'qc complete') {
             _log('Moving run folder to /outgoing/');
@@ -377,7 +377,7 @@ sub update_run_from_path { ##### Method to deal with one run folder
         return; # Nothing else to do for a folder in /analysis/
     }
 
-    _log('Folder is in /incoming/');
+    _log("Folder $run_path is in /incoming/");
 
     # If we don't remember seeing it before, set the folder name and glob;
     # set staging tag, if appropriate, set/fix instrument side, workflow side.
@@ -411,7 +411,7 @@ sub update_run_from_path { ##### Method to deal with one run folder
         
         my $latest_cycle = $folder->get_latest_cycle();
         if ($folder->update_cycle_count($latest_cycle)) {
-            _log("Cycle count updated to $latest_cycle");
+            _log("Cycle count updated to $latest_cycle for $run_path");
         }
         
         if ( $run_status eq 'run pending' )  {