Connected standard command handler getCommand("f"), for it to work with other plugins which directly execute commands using that interface.

src/com/massivecraft/factions/P.java

@@ -2,16 +2,18 @@ package com.massivecraft.factions;
 
 import java.lang.reflect.Modifier;
 import java.lang.reflect.Type;
+import java.util.Arrays;
 import java.util.HashSet;
 import java.util.Map;
 import java.util.Set;
 
 import org.bukkit.block.Block;
-import org.bukkit.Location;
+import org.bukkit.command.Command;
-import org.bukkit.Material;
 import org.bukkit.command.CommandSender;
 import org.bukkit.entity.Player;
 import org.bukkit.event.player.PlayerChatEvent;
+import org.bukkit.Location;
+import org.bukkit.Material;
 
 import com.massivecraft.factions.adapters.FFlagTypeAdapter;
 import com.massivecraft.factions.adapters.FLocToStringSetTypeAdapter;
@@ -36,6 +38,7 @@ import com.massivecraft.factions.struct.FPerm;
 import com.massivecraft.factions.struct.Rel;
 import com.massivecraft.factions.util.AutoLeaveTask;
 import com.massivecraft.factions.zcore.MPlugin;
+import com.massivecraft.factions.zcore.util.TextUtil;
 
 import com.google.gson.GsonBuilder;
 import com.google.gson.reflect.TypeToken;
@@ -112,6 +115,9 @@ public class P extends MPlugin
 		getServer().getPluginManager().registerEvents(blockListener, this);
 		getServer().getPluginManager().registerEvents(serverListener, this);
 
+		// since some other plugins execute commands directly through this command interface, provide it
+		this.getCommand(this.refCommand).setExecutor(this);
+
 		postEnable();
 		this.loadSuccessful = true;
 	}
@@ -186,6 +192,17 @@ public class P extends MPlugin
 		return super.handleCommand(sender, commandString, testOnly);
 	}
 
+	@Override
+	public boolean onCommand(CommandSender sender, Command command, String label, String[] split)
+	{
+		// if bare command at this point, it has already been handled by MPlugin's command listeners
+		if (split == null || split.length == 0) return true;
+
+		// otherwise, needs to be handled; presumably another plugin directly ran the command
+		String cmd = Conf.baseCommandAliases.isEmpty() ? "/f" : "/" + Conf.baseCommandAliases.get(0);
+		return handleCommand(sender, cmd + " " + TextUtil.implode(Arrays.asList(split), " "), false);
+	}
+
 
 
 	// -------------------------------------------- //

src/com/massivecraft/factions/zcore/MPlugin.java

@@ -36,6 +36,7 @@ public abstract class MPlugin extends JavaPlugin
 	protected boolean loadSuccessful = false;
 	public boolean getAutoSave() {return this.autoSave;}
 	public void setAutoSave(boolean val) {this.autoSave = val;}
+	public String refCommand = "";
 	
 	// Listeners
 	private MPluginSecretPlayerListener mPluginSecretPlayerListener; 
@@ -69,6 +70,16 @@ public abstract class MPlugin extends JavaPlugin
 		this.txt = new TextUtil();
 		initTXT();
 
+		// attempt to get first command defined in plugin.yml as reference command, if any commands are defined in there
+		// reference command will be used to prevent "unknown command" console messages
+		try
+		{
+			Map<String, Map<String, Object>> refCmd = this.getDescription().getCommands();
+			if (refCmd != null && !refCmd.isEmpty())
+				this.refCommand = (String)(refCmd.keySet().toArray()[0]);
+		}
+		catch (ClassCastException ex) {}
+
 		// Create and register listeners
 		this.mPluginSecretPlayerListener = new MPluginSecretPlayerListener(this);
 		this.mPluginSecretServerListener = new MPluginSecretServerListener(this);

src/com/massivecraft/factions/zcore/MPluginSecretServerListener.java

@@ -1,7 +1,5 @@
 package com.massivecraft.factions.zcore;
 
-import java.util.Map;
-
 import org.bukkit.event.EventHandler;
 import org.bukkit.event.EventPriority;
 import org.bukkit.event.Listener;
@@ -10,22 +8,10 @@ import org.bukkit.event.server.ServerCommandEvent;
 public class MPluginSecretServerListener implements Listener
 {
 	private MPlugin p;
-	private String refCommand;
 
 	public MPluginSecretServerListener(MPlugin p)
 	{
 		this.p = p;
-		refCommand = "";
-
-		// attempt to get first command defined in plugin.yml as reference command, if any commands are defined in there
-		// reference command will be used to prevent "unknown command" console messages
-		try
-		{
-			Map<String, Map<String, Object>> refCmd = p.getDescription().getCommands();
-			if (refCmd != null && !refCmd.isEmpty())
-				refCommand = (String)(refCmd.keySet().toArray()[0]);
-		}
-		catch (ClassCastException ex) {}
 	}
 	
 	@EventHandler(priority = EventPriority.LOWEST)
@@ -35,7 +21,7 @@ public class MPluginSecretServerListener implements Listener
 		
 		if (p.handleCommand(event.getSender(), event.getCommand()))
 		{
-			event.setCommand(refCommand);
+			event.setCommand(p.refCommand);
 		}
 	}