diff --git a/gtk2_ardour/rc_option_editor.cc b/gtk2_ardour/rc_option_editor.cc
index ee0a9828a0..3dc5972eac 100644
--- a/gtk2_ardour/rc_option_editor.cc
+++ b/gtk2_ardour/rc_option_editor.cc
@@ -1269,7 +1269,7 @@ RCOptionEditor::RCOptionEditor ()
 	add_option (_("Audio"),
 	     new BoolOption (
 		     "plugins-stop-with-transport",
-		     _("Stop plugins when the transport is stopped"),
+		     _("Flush plugins when the transport is stopped"),
 		     sigc::mem_fun (*_rc_config, &RCConfiguration::get_plugins_stop_with_transport),
 		     sigc::mem_fun (*_rc_config, &RCConfiguration::set_plugins_stop_with_transport)
 		     ));
diff --git a/libs/ardour/ardour/rc_configuration_vars.h b/libs/ardour/ardour/rc_configuration_vars.h
index 766db9db1c..9c631b11ee 100644
--- a/libs/ardour/ardour/rc_configuration_vars.h
+++ b/libs/ardour/ardour/rc_configuration_vars.h
@@ -111,6 +111,9 @@ CONFIG_VARIABLE (gain_t, click_gain, "click-gain", 1.0)
 
 /* transport control and related */
 
+/** if true, we call Processor::flush() on all processors when the transport is stopped.
+ *  Note that processors are still run when the transport is not moving.
+ */
 CONFIG_VARIABLE (bool, plugins_stop_with_transport, "plugins-stop-with-transport", false)
 CONFIG_VARIABLE (bool, do_not_record_plugins, "do-not-record-plugins", false)
 CONFIG_VARIABLE (bool, stop_recording_on_xrun, "stop-recording-on-xrun", false)
diff --git a/libs/ardour/route.cc b/libs/ardour/route.cc
index c726aec833..f5bd4dc636 100644
--- a/libs/ardour/route.cc
+++ b/libs/ardour/route.cc
@@ -518,11 +518,6 @@ Route::process_output_buffers (BufferSet& bufs,
 			continue;
 		}
 
-		if (Config->get_plugins_stop_with_transport() && _session.transport_speed() == 0 && boost::dynamic_pointer_cast<PluginInsert> (*i)) {
-			/* don't run plugins with the transport stopped, if configured this way */
-			continue;
-		}
-		
 #ifndef NDEBUG
 		/* if it has any inputs, make sure they match */
 		if (boost::dynamic_pointer_cast<UnknownProcessor> (*i) == 0 && (*i)->input_streams() != ChanCount::ZERO) {