Consumer Links
Amazon Japan: Just like the US counterpart, but sells japanese goods.
Ami Ami: Good place to check out upcoming figures.
Animate Shop: Japanese retailer chain that specializes in all types of anime goods. Fun to browse through.
Babel Fish: Website language translator that I use frequently.
CD Japan: Purchase just about any Japanese import cd or dvd (not just anime).
Celga: Middleman for getting items off Japanese auction sites.
Chara-Ani キャラアニ: Various anime goods.
DealCatcher: Online coupons & deals.
DVD Price Search: Price out dvds from the major domestic online retailers and coupons.
HobbyLink Japan: If you're into figures and kits.
Hobby Stock: For a better closeup of those figures you might want to buy.
Manga Search: Actually sells shitajiki/pencil boards.
PESAN: Sells used anime and manga. Pricey but has some rare stuff.
Printable Coupons: Online coupons & deals.
Universal Currency Converter: Useful in converting any type of currency.
WorldLingo : Another free online translator.
Yahoo! JP Auctions: Sort of like the Ebay for Japan.
Yes Asia: Asian pop music, movies, CD, DVD, karaoke, books, video games, magazine, and gifts.

Image Galleries
Danbooru
shuushuu: Kawaii Image Board

Production/Distribution
Anime International Company
Animedia
Aniplex
Bandai Visual
Bones
Clamp
Del Rey Manga
Gainax
Genco
Geneon Entertainment
J.C. Staff
Kyoto Animation
Madhouse
Marvelous Entertainment Inc.
Media Factory
MediaWorks
Production I.G.
Starchild
Studio 4°C
Studio Deen
Studio Ghibli
Studio Pierrot
Sunrise
Toei Animation
TV Tokyo
Victor Entertainment
Video Audio Project
Viz Media
Yen Press

Comics on the Web
Ctrl+Alt+Del
Doonesbury
Frazz
Luann
Non Sequitur
Pearls Before Swine
Penny Arcade
Speed Bump
Working Daze
Zits

Just For Fun
AnandTech
AudiogoN
AVS Forum
BBC Radio 1
Beatport
Blu-ray.com
Bootie
Craft Beer
DailyTech
The Debaters
Demonoid
Drew Curtis' FARK.com
EZTV
Free-Codecs.com
Huffington Post
Laserdisc Database
Magnolia Pictures
Movies.com
The Pirate Bay
Promo Only
Tom's Hardware Guide

Money
Bankrate
Bloomberg
Forbes
Morningstar
The Motley Fool
Vanguard