Program: 25233
Project: 25233
Buggy source:
public static int prefix(Player player,String[] args){
  if (player.canUseCommand("String_Node_Str") && vConfig.getInstance().prefix()) {
    if (args.length < 2) {
      vChat.sendMessage(player,player,Colors.Rose + "String_Node_Str");
      player.sendMessage(Colors.DarkPurple + "String_Node_Str" + player.getName()+ "String_Node_Str");
      vChat.sendMessage(player,player,Colors.DarkPurple + "String_Node_Str" + Colors.Black+ "String_Node_Str"+ Colors.LightGreen+ "String_Node_Str"+ Colors.Black+ "String_Node_Str"+ Colors.Yellow+ player.getName());
      return EXIT_SUCCESS;
    }
    Player other=etc.getServer().matchPlayer(args[0]);
    if (other == null) {
      vChat.sendMessage(player,player,Colors.Rose + "String_Node_Str");
      return EXIT_SUCCESS;
    }
    if (player != other && other.hasControlOver(player)) {
      vChat.sendMessage(player,player,Colors.Rose + "String_Node_Str");
      return EXIT_SUCCESS;
    }
    if (vChat.msgLength(args[1]) > 60) {
      vChat.sendMessage(player,player,Colors.Rose + "String_Node_Str");
      return EXIT_SUCCESS;
    }
    if (args.length >= 2 && args[0] != null) {
      other.setPrefix(args[1]);
      player.sendMessage(Colors.Rose + "String_Node_Str");
      FlatFileSource ffs=new FlatFileSource();
      ffs.modifyPlayer(other);
    }
    if (args.length >= 3 && args[1] != null) {
      String tagbag=etc.combineSplit(2,args,"String_Node_Str");
      vUsers.players.findProfile(other).setTag(tagbag);
      player.sendMessage(Colors.LightGreen + "String_Node_Str");
      log.log(Level.INFO,player + "String_Node_Str" + tagbag);
    }
    return EXIT_SUCCESS;
  }
  if (!player.canUseCommand("String_Node_Str") && vConfig.getInstance().prefix()) {
    return EXIT_FAIL;
  }
  if (args.length < 1) {
    vChat.sendMessage(player,player,Colors.Rose + "String_Node_Str");
    player.sendMessage(Colors.DarkPurple + "String_Node_Str");
    vChat.sendMessage(player,player,Colors.DarkPurple + "String_Node_Str" + Colors.Black+ "String_Node_Str"+ Colors.LightGreen+ "String_Node_Str"+ Colors.Black+ "String_Node_Str"+ Colors.Yellow+ player.getName());
    return EXIT_SUCCESS;
  }
  if (args.length >= 1 && args[0] != null) {
    player.setPrefix(args[0]);
    player.sendMessage(Colors.Rose + "String_Node_Str");
  }
  if (args.length >= 2 && args[1] != null) {
    if (vChat.msgLength(args[1]) > 60) {
      vChat.sendMessage(player,player,Colors.Rose + "String_Node_Str");
      return EXIT_SUCCESS;
    }
    vUsers.players.findProfile(player).setTag(args[1]);
    player.sendMessage(Colors.LightGreen + "String_Node_Str");
  }
  return EXIT_SUCCESS;
}

Fixed version (ground truth):
public static int prefix(Player player,String[] args){
  if (player.canUseCommand("String_Node_Str") && vConfig.getInstance().prefix()) {
    if (args.length < 2) {
      vChat.sendMessage(player,player,Colors.Rose + "String_Node_Str");
      player.sendMessage(Colors.DarkPurple + "String_Node_Str" + player.getName()+ "String_Node_Str");
      vChat.sendMessage(player,player,Colors.DarkPurple + "String_Node_Str" + Colors.Black+ "String_Node_Str"+ Colors.LightGreen+ "String_Node_Str"+ Colors.Black+ "String_Node_Str"+ Colors.Yellow+ player.getName());
      return EXIT_SUCCESS;
    }
    Player other=etc.getServer().matchPlayer(args[0]);
    if (other == null) {
      vChat.sendMessage(player,player,Colors.Rose + "String_Node_Str");
      return EXIT_SUCCESS;
    }
    if (player != other && other.hasControlOver(player)) {
      vChat.sendMessage(player,player,Colors.Rose + "String_Node_Str");
      return EXIT_SUCCESS;
    }
    if (vChat.msgLength(args[1]) > 60) {
      vChat.sendMessage(player,player,Colors.Rose + "String_Node_Str");
      return EXIT_SUCCESS;
    }
    if (args.length >= 2 && args[0] != null) {
      other.setPrefix(args[1]);
      player.sendMessage(Colors.Rose + "String_Node_Str");
      FlatFileSource ffs=new FlatFileSource();
      ffs.modifyPlayer(other);
    }
    if (args.length >= 3 && args[1] != null) {
      vUsers.players.findProfile(other).setTag(args[2]);
      player.sendMessage(Colors.LightGreen + "String_Node_Str");
      log.log(Level.INFO,player + "String_Node_Str" + args[2]);
    }
    return EXIT_SUCCESS;
  }
  if (!player.canUseCommand("String_Node_Str") && vConfig.getInstance().prefix()) {
    return EXIT_FAIL;
  }
  if (args.length < 1) {
    vChat.sendMessage(player,player,Colors.Rose + "String_Node_Str");
    player.sendMessage(Colors.DarkPurple + "String_Node_Str");
    vChat.sendMessage(player,player,Colors.DarkPurple + "String_Node_Str" + Colors.Black+ "String_Node_Str"+ Colors.LightGreen+ "String_Node_Str"+ Colors.Black+ "String_Node_Str"+ Colors.Yellow+ player.getName());
    return EXIT_SUCCESS;
  }
  if (args.length >= 1 && args[0] != null) {
    player.setPrefix(args[0]);
    player.sendMessage(Colors.Rose + "String_Node_Str");
  }
  if (args.length >= 2 && args[1] != null) {
    if (vChat.msgLength(args[1]) > 60) {
      vChat.sendMessage(player,player,Colors.Rose + "String_Node_Str");
      return EXIT_SUCCESS;
    }
    vUsers.players.findProfile(player).setTag(args[1]);
    player.sendMessage(Colors.LightGreen + "String_Node_Str");
  }
  return EXIT_SUCCESS;
}