Index: trunk/tools/czartool/Plotter.pm
===================================================================
--- trunk/tools/czartool/Plotter.pm	(revision 29705)
+++ trunk/tools/czartool/Plotter.pm	(revision 29706)
@@ -389,7 +389,9 @@
 
     my $firstIn = 1;
-    foreach my $stage (keys %$gnuplotFiles) {
+    # loop through stages array so that they are ordered properly (not maintained in hash)
+    foreach my $stage (@allStages) {
         if (!$firstIn) {print GP ",";}
 
+        if(!$gnuplotFiles->{$stage}) {next;}
         # for single stage plots, show pending/processed/faults
         if ($numOfPlots == 1) {