see if this makes a difference

# Welcome to the configuration for PerWorldPlugins!
# This plugin is used to limit plugins to certain worlds. This does have its limits!
# Plugins that use login events and such should not be limited by this plugin, as it can break some things.
# --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
# Here's a nice little example of the configuration.
# limit:
#   Minigames:
#     - world
#     - world_nether
#   Essentials: []
# This setup will restrict WorldEdit to only work in 'world' and 'world_nether'. Any other worlds will not suffice!
# When there is no list of worlds that you want a plugin to be limited in, just leave brackets. Look back at the example, and find Essentials. The plugin is not limited.
# Did you just add a plugin to your server? No worries! This configuration will automatically be updated with any new plugins on a reload.
# ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
# exempt-login-events is pretty self-explanatory. It allows you to choose whether or not WorldPlugins will restrict the login events that some plugins may have. THIS IS RECOMMENDED TO TRUE!
# blocked-msg is the string that pops up when a player tries to do a command while in a world that blocks the plugin where the command comes from. Look back at the example. Trying //we help in
# 'world_the_end' will return this message.
exempt-login-events: true
blocked-msg: '&f[&bVault&6Craft&f] &6Sorry, you may not use this command in this world!'
limit:
  SimpleBackup: []
  WorldEdit: []
  NoCheatPlus: []
  mcore: []
  Vault: []
  HealthBar: []
  PermissionsEx: []
  PlotMe:
    - Creative
  BarAPI: []
  WorldGuard: []
  EnjinMinecraftPlugin: []
  DamageIndicatorHolograms: []
  CoreProtect: []
  BookRules: []
  HiveJumpPads:
    - Spawn
  VariableTriggers: []
  ClearLag: []
  PlayerVaults:
    - Factions
    - Factions_End
    - Factions_Nether
  RandomTP:
    - Survival2
    - Survival_End
    - Survival_Nether
  mcMMO:
    - Factions
    - Factions_End
    - Factions_Nether
  ProSpam: []
  Essentials: []
  Citizens: []
  EssentialsSpawn: []
  Multiverse-Core: []
  EchoPet: []
  EssentialsChat: []
  HolographicDisplays: []
  Factions:
    - Factions
    - Factions_End
    - Factions_Nether
  Multiverse-Inventories: []
  SpeechBubbles: []
  TouchscreenHolograms: []
  CombatLog: []
  floAuction:
    - Factions
    - Faction_End
    - Factions_Nether
  WhatIsIt: []
  BossMessage:
    - Spawn
    - Hub
  ProtectionStones:
    - Survival2
    - Survival_End
    - Survival_Nether
  tpLogin: []
  Multiverse-NetherPortals: []
  ChestShop: []
  HubTeleport: []
  Info-Board:
    - Hub
  AreaShop: []
  ShopMenu: []
  ChestCommands: []
  PotionFix:
    - Factions
    - Factions_End
    - Factions_Nether
  CompatNoCheatPlus: []
  VoxelSniper: []
  ObsidianDestroyer: []
  SurvivalGames: []
  DeepVanish: []
  CustomJoinItems:
    - spawn
    - Hub
  TrophyHeads: []
  AntiLootSteal: []
  DoubleXP: []
  DCNFlashlight: []
  DisableMessage: []
  ClaimLevels: []
  WorldBorder: []
  SilkSpawners: []
  RateOfXray: []
  Pixelator: []
  HeroBounty:
    - Factions
    - Factions_End
    - Factions_Nether
  Orebfuscator: []
  uSkyBlock:
    - spawn
    - hub
    - skyworld
  Kits:
    - spawn
    - hub
  Books: []