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Links
Honorable Mentions
In my eyes these are some of the best websites on the Internet!
The #1 site for translation news and ROM hack news! This site is so critical to the ROM hacking scene that it is the very backbone of it. It's been around for many years.
Contains a vast collection of NES, SNES and PSX sprites! The webmistress is a dear online friend I've known since the late 90's. Her website is awesome! By the detail you can tell she poured her love into it.
I've always considered this website somewhat of an affiliate because they've been around a long time and their style is similar to mine. They only cover RPGs and they do so with a shrine system.
This is the oldest & best Shining Force series fan site! It's truly a labor of love. This site offers anything and everything Shining Force, supported by a dedicated community.
Torrents
"Q: 'Torrent sites'? What are those?" You can download practically anything from a torrent website. The torrent program that most people seem to prefer is uTorrent. Note that all these sites have pop-ups and are rather fishy. I would advise browsing them with an anti-virus running, like MS Security Essentials (it's free) and/or AVG (also free).
Torrentz, Pirate Bay, IsoHunt, Btjunkie, Mininova, BiteNova - Torrent search sites.
Anime Blogs/Links
AnimeNation Blog - Great place for anime news.
The Anime Web Turnpike - Contains tons of links to anime websites of every kind. They're a good place for anime news, too.
Sailor Moon Fanfic.com - A good resource for Sailor Moon fan fiction and links to other Sailor Moon websites.
Manga
Manga Reader, Manga Panda - Probably the best site out there for manga! Note: These two are the same site, just with different regional permissions.
Manga Here - Another great manga site.
Streaming Anime
Crunchyroll - This is the #1 site for anime streaming! And they're legal. They even have a PS3 app.
Funimation's Channel - This is probably the #1 channel on YouTube for anime. Compared to the other anime channels, Funimation puts up the most anime and has the most popular titles.
Crackle's Anime Playlist - Crackle has a fantastic selection of anime up for free online streaming. It even has Final Fantasy VII: Advent Children!
Anime on Hulu.com - If you don't mind commercials, Hulu has tons of big name anime up like Naruto, Bleach, Dragon Ball Z, Yu-Gi-Oh, Inuyasha, Fairy Tail, Fullmetal Alchemist, Hellsing, Trigun, Last Exile, Full Metal Panic, and more. Btw, if you install AdBlock it removes the commercials :)
FantasyAnime's Anime Playlist - There's quite a bit of anime up on YouTube. They've been up for years so I suppose they're here to stay! I've prepared this playlist for you to house a pretty good collection of it. It primarily consists of classic anime movies (probably why they've never been removed).
Bandai Entertainment's Channel - It's not as beefy as the other channels but they do have a few full seasons, particularly Gundam.
WEP's Channel - They have all the classic Voltron episodes up (officially).
Toonami Aftermath - This is a live streaming site dedicated to the old Toonami program on Cartoon Network. It's not spammy and full of ads either.
Downloadable Anime
BakaBT - My favorite anime torrent site.
MyAnime.me, Deadfrog - Other anime torrent sites.
AnimeSuki - The best site for downloading fan subbed anime that does not not have a NA license.
Anime Music
BakaBT - An awesome website for downloading anime soundtracks (and anime) via torrents. You need to sign up first, though.
Animemp3s.ORG - Online community dedicated to sharing anime MP3s.
Emulation/ROMs
To make description-reading easier for you, sites with a 
have ROMs for every 8-bit/16-bit video game system. That includes NES, SNES, Genesis, Gameboy, Game Gear, Sega Master System, etc.
Zophar's Domain - A great place for video game emulators, music (SPC, PSF, GYM, GBS, etc.), emulator save states, ZSNES CHT files, and more!
The ISO Zone - Including Dreamcast, Gamecube, PC, PSX, Sega CD, and NDS.
RomNation - Including Sega CD, N64, and arcade. There are tons of ads, too.
Rom Hustler - Including Sega CD, N64, and arcade. There are tons of ads, too.
EmuRussia - No ads, no pop-ups, no hassle!
Emucation - This website is great! Downloading is fast and easy. They even have Sega CD games.
SnesOrama - They have PSX, Sega CD, TurboGrafx16, TurboGrafx16-CD, N64, and SNES.
DGEmu.com - Including N64 and GBA.
Romulation.net - Including GBA, NDS, N64, PSX, and PSP.
ROM-World - They make you vote for them in some top site list before you download.
Planet Emulation - It's a foreign site; they include a great collection of large arcade ROMs.
GamerZ Paradise - (has pop-ups) Including GBA, N64, and PSX.
Cool ROM - (has pop-ups) They have arcade, Sega CD, Saturn, and N64.
EmuParadise - Including Sega CD, PSX and GBA. Downloads are painstakingly slow, along with tons of pop-up ads.
Gameboy Advance ROMs - They have a virtually complete collection of GBA ROMs.
Eidolon's Inn - No ROMs here. This place is a great resource for anything on emulation for Sega's systems. It's been around since 1997!
Browser ROMs
SnesBox - Play SNES games in your browser! (via Flash)
NesPlay - Play NES games in your browser! (via Java)
VirtualNES - Play Gameboy, NES, and SNES games in your browser! (via Java)
Game Reviews
Flying Omelette's Kitchen - Go here for excellent reviews on classic games and other interesting game-related stuff! This place is also home to a massive cameos database.
Hardcore Gaming 101 - As the name implies, hardcore gaming has extensive reviews covering games of every genre and era. What's most interesting about this site is that the majority of its review sections covers the entire game series.
NESquester - A blog, “where one man quests to play every NES game in order”! This guy writes great, funny NES reviews.
Sega-16 - They have tons of game reviews and interesting articles about all sorts of Sega-related things.
NES Horsemen - The NES reviews in this place are quite humorous. They have other stuff too like movie reviews and MP3 downloads of arcade music.
Deathamster's Nest - In addition to great game reviews, they also also have original sections, like game bloopers, game ideas, game humor, nonsense shrine, and more.
CodieKitty.com - (also has NES & Genesis content) Dedicated to providing reviews and various other interesting stuff.
NES Player - This place is neato! He designed each game section like if it was a separate website, like me. :)
NES Retreat - This place is pretty cool; it's a similar style of Flying Omelette's site.
RoyalRanger's NES Site - This place is great! It has lots of media and various other goodies.
The NES Fountain - Yet another devoted NES site with lots o' reviews & various other media goodies.
Tri-Ace Superfan - A bit small, but interesting.
Gaming Music
DJ Pretzel's Overclocked Remixes - An excellent site jam-packed full of video game MP3 remixes.
Galbadia Hotel - A popular site to go to for video game MP3s, art, and commercials.
2EastMusic.com - An aspiring RPG music composer. His songs are excellent! Check 'em out.
Gaming Archives
Video Game Museum - A huuuge archive of video game screen shots, box scans, ad scans, game endings, music, sprites, and more!
Replacementdocs - Contains thousands of video game manuals from various systems of classic and recent ages.
Vimm's Lair - Another site with thousands of game manuals form various systems. Click on “Manual Project”.
Sprites
VideoGameSprites.net - My friend's site. She has a vast collection of NES, SNES and PSX sprites! Her SNES collections are THE BEST on the net!!
Shyguy Kingdom- An excellent, massive sprites site; contains thousands of video game sprites and from many systems!
Game Sprites Archives - A vast sprites archives with sprites from most of the popular systems.
NES & SNES Sprites - They have a pretty good collection of NES & SNES sprites.
Video Game Maps
VGMapper.com - They have tons of high quality maps for all the major gaming systems! These people are really nice. They even allowed me to host some of their maps in my RPG shrines.
VGMaps.com - They have tons of maps for all the major gaming systems!
Mac Gaming
MacScene - An excellent website and community for those who are into Mac video game emulation. They have all of the available emulators.
Macintosh Garden - This place distributes great classic games for the Mac. Doom 2 and SimCity 2000 are two examples of what they have.
Mac Game Files - A good Mac gaming site. Has up-to-date news, reviews, demos, tools, and more.
Inside Mac Games - Another good Mac gaming site. Has up-to-date news, previews, reviews, forum, polls, chat, and more.
RPG Sites
RPG Classics - They're like GameFAQs, but they only focus on RPGs and their walkthroughs are organized in a website layout. It's an excellent website with a strong fan base that has been around since '97! They have other stuff like a community, fan art, fan fics, fan music, and more.
Shining Force Central - The #1 fansite for the Shining Force series!
The Phantasy Star Pages - My favorite fansite for the Phantasy Star series.
Icy Brian's RPG Page - This website is beyond excellent. It's been around since '97! Unlike all those other fancy smansy RPG sites, Icy Brian's page has a strong fan base. It's probably most well known for its massive archives of quality fan fics and fan art. There's also game reviews, an IRC chat, forums, and more!
Home of Classic Role Playing Games - Wolfgang's game sections are very detailed and full of eye candy. He covers everything Shining Force, everything Phantasy Star, everything Lunar, and other great RPGs.
RPGamer, RPGFan - Excellent sites dedicated to reviewing RPGs of all kinds.
Final Fantasy Shrine, Eyes on Final Fantasy, Final Fantasy Extreme - Excellent sites dedicated to reviewing every Final Fantasy.
Fan Translations
Romhacking.net - This is the #1 site for translation news and ROM hack news! They're the most up-to-date with all the juicy translation news out there.
Aeon Genesis Translation Proclamation - This is the domain of the almighty Gideon Zhi! He's one of the most active rom hackers in the translation scene.
Translation Corporation - These are the people who translated Dual Orb 2! Now they're working on Emerald Dragon, WOZZ, and others.
Dynamic Designs - This group has been around for a while. They're translating a nice collection of games.
Stealth Translations - This group is probably most famous for Feda: The Emblem of Justice. They're also working on the Fire Emblem 5 translation!
Interested in linking to FantasyAnime on your website? Feel free to use my sexy little button :) And please upload the button to your site because the URL to it tends to change over time.