Program: 141590
Project: 141590
Buggy source:
@Override public void run(final CommandSender cs,String label,String[] args){
  if (!r.isPlayer(cs)) {
    return;
  }
  Player p=(Player)cs;
  if (!r.perm(p,"String_Node_Str",true,true)) {
    return;
  }
  if (r.checkArgs(args,0) && args[0].contains("String_Node_Str")) {
    if (!r.perm(p,"String_Node_Str",true,true)) {
      return;
    }
    OfflinePlayer t=r.searchOfflinePlayer(args[0].split("String_Node_Str")[0]);
    if (t == null || (!t.hasPlayedBefore() && !t.isOnline())) {
      r.sendMes(cs,"String_Node_Str","String_Node_Str",args[0].split("String_Node_Str")[0]);
      return;
    }
    List<String> homes=UC.getPlayer(t).getHomeNames();
    if (homes.contains(args[0])) {
      r.sendMes(cs,"String_Node_Str","String_Node_Str",args[0]);
    }
 else {
      r.sendMes(cs,"String_Node_Str","String_Node_Str",args[0]);
    }
    if (!homes.contains(args[0].toLowerCase().split("String_Node_Str")[1])) {
      homes.add(args[0].toLowerCase().split("String_Node_Str")[1]);
    }
    UC.getPlayer(t).addHome(args[0].toLowerCase().split("String_Node_Str")[1],p.getLocation());
    return;
  }
  Set<String> multihomes=r.getCnfg().getConfigurationSection("String_Node_Str").getKeys(false);
  Integer limit=1;
  if (multihomes != null) {
    for (    String s : multihomes) {
      if (r.perm(cs,"String_Node_Str" + s.toLowerCase(),false,false)) {
        if (limit > r.getCnfg().getInt("String_Node_Str" + s)) {
          limit=r.getCnfg().getInt("String_Node_Str" + s);
        }
      }
    }
  }
  if (r.perm(cs,"String_Node_Str",false,false)) {
    limit=999999;
  }
  List<String> homes=UC.getPlayer(p).getHomeNames();
  if (homes.size() >= limit) {
    r.sendMes(cs,"String_Node_Str","String_Node_Str","String_Node_Str",limit);
    return;
  }
  String name=r.checkArgs(args,0) ? args[0] : "String_Node_Str";
  if (homes.contains(name)) {
    r.sendMes(cs,"String_Node_Str","String_Node_Str",name);
  }
 else {
    r.sendMes(cs,"String_Node_Str","String_Node_Str",name);
  }
  if (!homes.contains(name.toLowerCase())) {
    homes.add(name.toLowerCase());
  }
  UC.getPlayer(p).addHome(name.toLowerCase(),p.getLocation());
}

Fixed version (ground truth):
@Override public void run(final CommandSender cs,String label,String[] args){
  if (!r.isPlayer(cs)) {
    return;
  }
  Player p=(Player)cs;
  if (!r.perm(p,"String_Node_Str",true,true)) {
    return;
  }
  if (r.checkArgs(args,0) && args[0].contains("String_Node_Str")) {
    if (!r.perm(p,"String_Node_Str",true,true)) {
      return;
    }
    OfflinePlayer t=r.searchOfflinePlayer(args[0].split("String_Node_Str")[0]);
    if (t == null || (!t.hasPlayedBefore() && !t.isOnline())) {
      r.sendMes(cs,"String_Node_Str","String_Node_Str",args[0].split("String_Node_Str")[0]);
      return;
    }
    List<String> homes=UC.getPlayer(t).getHomeNames();
    if (homes.contains(args[0])) {
      r.sendMes(cs,"String_Node_Str","String_Node_Str",args[0]);
    }
 else {
      r.sendMes(cs,"String_Node_Str","String_Node_Str",args[0]);
    }
    if (!homes.contains(args[0].toLowerCase().split("String_Node_Str")[1])) {
      homes.add(args[0].toLowerCase().split("String_Node_Str")[1]);
    }
    UC.getPlayer(t).addHome(args[0].toLowerCase().split("String_Node_Str")[1],p.getLocation());
    return;
  }
  Set<String> multihomes=r.getCnfg().getConfigurationSection("String_Node_Str").getKeys(false);
  Integer limit=1;
  if (multihomes != null) {
    for (    String s : multihomes) {
      if (r.perm(cs,"String_Node_Str" + s.toLowerCase(),false,false)) {
        if (limit < r.getCnfg().getInt("String_Node_Str" + s)) {
          limit=r.getCnfg().getInt("String_Node_Str" + s);
        }
      }
    }
  }
  if (r.perm(cs,"String_Node_Str",false,false)) {
    limit=999999;
  }
  List<String> homes=UC.getPlayer(p).getHomeNames();
  if (homes.size() >= limit) {
    r.sendMes(cs,"String_Node_Str","String_Node_Str","String_Node_Str",limit);
    return;
  }
  String name=r.checkArgs(args,0) ? args[0] : "String_Node_Str";
  if (homes.contains(name)) {
    r.sendMes(cs,"String_Node_Str","String_Node_Str",name);
  }
 else {
    r.sendMes(cs,"String_Node_Str","String_Node_Str",name);
  }
  if (!homes.contains(name.toLowerCase())) {
    homes.add(name.toLowerCase());
  }
  UC.getPlayer(p).addHome(name.toLowerCase(),p.getLocation());
}