These two see the most use:
1. Magic Item Compendium
2. PHB 2
These next ones don't see an especially great amount of use, but I really like them. No particular order.
3. Complete Scoundrel
4. Complete Mage
5. Complete Arcane
6. Heroes of Horror
7. Lords of Madness
8. Fiendish Codex I
9. Fiendish Codex II
10. Tome of Battle: The Book of Nine Swords
Honorable mention:
Spell Compendium: I want to love this, I really do, but it's never come up in game because none of my players ever opt to use it and I usually try to keep NPC spellcasters simple. It's also not the sort of book you can sit there and read... so it gets honorable mention.
I should also mention that I consider the XPH to be core, or else I'd list it and probably bump heroes of horror.