GO to npc folder/find scripts_guild.conf open it.then comment the castle you want to disabble like this..
// --------------------------------------------------------------
// - Guild Wars -
// --------------------------------------------------------------
// --------------------------------------------------------------
// ----------------------- War of Emperium ----------------------
// Guild NPC Template file.
npc: npc/guild/agit_template.txt
// Guild WoE time settings.
npc: npc/guild/agit_controller.txt
// Al De Baran
//npc: npc/guild/aldeg_cas01.txt
//npc: npc/guild/aldeg_cas02.txt
//npc: npc/guild/aldeg_cas03.txt
//npc: npc/guild/aldeg_cas04.txt
//npc: npc/guild/aldeg_cas05.txt
// Geffen
//npc: npc/guild/gefg_cas01.txt
//npc: npc/guild/gefg_cas02.txt
//npc: npc/guild/gefg_cas03.txt
//npc: npc/guild/gefg_cas04.txt
//npc: npc/guild/gefg_cas05.txt
// Payon
//npc: npc/guild/payg_cas01.txt
//npc: npc/guild/payg_cas02.txt
//npc: npc/guild/payg_cas03.txt
//npc: npc/guild/payg_cas04.txt
//npc: npc/guild/payg_cas05.txt
// Prontera
npc: npc/guild/prtg_cas01.txt
//npc: npc/guild/prtg_cas02.txt
//npc: npc/guild/prtg_cas03.txt
//npc: npc/guild/prtg_cas04.txt
//npc: npc/guild/prtg_cas05.txt
// --------------------------------------------------------------
// --------------- War of Emperium Second Edition ---------------
// WoE SE scripts in their purest form, unoptomized.
// To disable any single castle, comment it out.
// --------------------------------------------------------------
// WoE SE time settings.
//npc: npc/guild2/agit_start_se.txt
// Town Flags
//npc: npc/guild2/guild_flags.txt
// Arunafeltz
//npc: npc/guild2/arug_cas01.txt
//npc: npc/guild2/arug_cas02.txt
//npc: npc/guild2/arug_cas03.txt
//npc: npc/guild2/arug_cas04.txt
//npc: npc/guild2/arug_cas05.txt
// Schwaltzvalt
//npc: npc/guild2/schg_cas01.txt
//npc: npc/guild2/schg_cas02.txt
//npc: npc/guild2/schg_cas03.txt
//npc: npc/guild2/schg_cas04.txt
//npc: npc/guild2/schg_cas05.txt
// Guild Dungeon Entrances
//npc: npc/guild2/guild_dungeon.txt
..in this case i only have one castle only open for WOE.. that's the castle on prontera, Krim.. prtg_Cas01