Beolach's Journal: My Favorite Funnies. (No particular order).

Irregular Webcomic
Darths & Droids
Unshelved
Real Life
8-bit Theatre
MegaTokyo
User Friendly
Player vs. Player (1)
Sluggy Freelance (1 2 3 4)
Kevin & Kell
Dilbert
The Fifth Wave
Ctrl+Alt+Del
General Protection Fault
Nodwick / Full Frontal Nerdity / PS238 / Backward Compatible
Applegeeks
Paradox Lost
The Gods of Arr-Kelaan
Schlock Mercenary
Foxtrot
UberSoft
The Whiteboard
Order of the Stick
Dudley's Dungeon (1 2 3 4 5 6 7 8 9)
Goblins
Bonobo-Conspiracy (1 2 3 4 5 6 7 8 9 A B C)
xkcd (1 2 3 4 5 6 7 8 9 A B C D E F G H I)
Fear the Boot: Chainmail Bikini
Freefall
Alien Dice
Zortic
if then else
The Nietzsche Family Circus (1)
Abby's Agency (1)

No longer updated.
The DM of the Rings (complete)
RPG World
Digital War
A Modest Destiny / The Starship Destiny