Official
PlayOnline
Server Status

Database
Allakhazam
eLeMeN (Japanese)
FFXIcyclopedia
FFXI Vault
Killing Ifrit
MysteryTour
somepage.com

FFXI Spell Database
Simple is the best (Japanese)

FFXI Auction House

Maps
Notorious Monster Map (speakeasy)
Treasure Hunting Map (speakeasy)
Vana'diel Atlas

Crafts
FishermanRods - Osakana Database
FFXI Fishing Database (by Clan Wind)

FFXI Recipe
FFXI Recipe - Guild Pattern
Titanictus - Daily Guild Item Tool

crafting chart (compass)
Yarinn's Crafting Visual Aid (compass)

The Clamming Kit (by lokyst)

Pikko Pots

Timers
lokyst's FFXI Crafting Timer
FFXI Time Information (by Pyogenes)
MithraPride Vana'diel Clock