Here is a list of games from the cookie threads.
I will update this list.
There are Kongrate links here, you get banned if you post those.
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Cookies
NEW URL:
http://orteil.dashnet.org/cookieclicker/
OLD URL:
http://orteil.dashnet.org/experiments/cookie/
 
INFORMATION:
-"Orteil !A3KWOkWo6E" is the tripcode of the developer.
Wiki:
http://cookieclicker.wikia.com/wiki/Cookie_Clicker_Wiki
Spreadsheet:
https://docs.google.com/spreadsheet/ccc?key=0ApsJUnfxuRBTdGdIOHVDT0lNbHZqRFVzZlhOY0RScVE#gid=0
-Official game guide
http://cookieclicker.wikia.com/wiki/Player%27s_Guide
-Achievement list
http://pastebin.com/r73TJ32j
-Ortiels twitter
https://twitter.com/Orteil42
 
________________________________________________OTHER GAMES____________________________________________________
 
(NEW!) Candy box 2:
http://candybox2.net/
 
Dicksucker - cookie spin-off (offline now, anyone got a new link?)
https://googledrive.com/host/0B9gerq8yrBHSQk1aVFJ6UW5zRWs/dicksucker.html
 
Candy Box
http://candies.aniwey.net/
pastebin
http://pastebin.com/8Dh8TbXf (embed)
 
A Dark Room
http://adarkroom.doublespeakgames.com/
 
Gold and Gems
http://nowic.pl/rawdan/gag/
 
That game where you click boxes
http://mogera.jp/gameplay?gid=gm0000001351
 
Ginormo
http://babarageo.com/flash/ginormo/
 
Kaguya Table: The Expansion
http://www.walfas.org/?p=1133
standalone version
http://www.walfas.org/flash/mod_kaguya_table_adv.swf
 
BoxCar2D - randomly generated vehicles trying to finish a course, with genetic/evolution script.
http://boxcar2d.com/index.html
 
Progress Quest
http://progressquest.com/play/
 
Idle Quest
NEW:
http://dagobah.net/flash/IdleQuest.swf
OLD:
https://7chan.org/fl/src/IdleQuest-Final.swf
 
Get clicks for your country!
Clickclickclick.com
 
Powder game (And lots of other fun shit)
http://dan-ball.jp/en/javagame/dust/
 
Anti idle game
http://www.kongregate.com/games/Tukkun/anti-idle-the-game
 
Battle without End
http://www.kongregate.com/games/critgame/battle-without-end
 
 
 
 
 
Also related...
http://www.analgape.xxx/roxyraye-secret-recipe/