I fucking hate the beggar lady in Assassin's Creed. She is so annoying and they always blow your cover so you have to escape the guards or kill them so more guards come to the scene.
A few annoying characters there was no room for...
Moira Brown, the Fallout 3 lady who asked you to walk through a minefield, invade a raider stronghold, explore a Mirelurk nest without fighting, expose your self to ungodly amounts of radiation, get hurt, so on, so forth.
Rose, Metal Gear Solid 2. 'Nuff said.
Great article. Gotta hate Navi, ha.