Well this should fix the issues with config, but I hate it.

src/main/java/com/gmail/nossr50/commands/general/MmoupdateCommand.java

@@ -42,7 +42,7 @@ public class MmoupdateCommand implements CommandExecutor {
      * Convert FlatFile data to MySQL data.
      */
     private void convertToMySQL() {
-        if (!Config.getUseMySQL()) {
+        if (!Config.getInstance().getUseMySQL()) {
             return;
         }