Ninpo & Ninjitsu
"Just a Small Part of The Stableford Martial Arts Resource Site"

Austin Bujinkan Tanemaki Dojo - Kendall Kelsoe
Budo Taijutsu Training Group at the Univeristy of Missouri
Bujinkan Atlanta Dojo Home Page
Bujinkan Brian Dojo in Scotland.
Bujinkan Bufukai - Michael Wedekind in Germany (Google's translating option does will give you a sense of the site, at least), he also offers a high speed course
Bujinkan Dojo - Masaaki Hatsumi
Bujinkan Dojo Belgium - Brecht Claerhout
Bujinkan Chicago Dojo - Mark Agostino - dojo directory of the US
The Bujinkan Source - outstanding!
Bujinkan Dojo America Headquarters
The Bujinkan Dojo Ninja Brotherhood of Canada - John Willson of Cornwall, Ont. - lists dojos, seminars, and vids of combat ki
Bujinkan Dojo NYC - Greg Kyle
Bujinkan Sen Ryu Ninjutsu - Steven Hellingh 
Bushindo Martial Arts University
Buuyuu - The Martial Arts Index - many bujinkan links, etc.
Bujinkan New York Dojo - Joe Maurantonio
The Canadian Ninja - a resource site with some unique information
Courageous Heart Bujinkan Ninjutsu - Gillian Booth in Sydney, Australia
Dayton Quest Center - Stephen K. Hayes - good articles and letters
Enter the Ninja.com - not a lot of depth, but a lot of coverage
Genbuka Yoshin School of Ninjitsu
Genbukan Internet Information Center - hosted by the Genbukan Ganseki Dojo in Houston TX - Amatus Tatara - some journal entries
Genbukan Ninpo Bugei and Kokusai Jujutsu Renmei Belgium Federation
Genbukan Yoshin School of Ninjutsu Gordon Pfeffer
Jiulong Ba Gua Zhang or maybe here
Kageyama Martial Arts - Greg Tremblay in Toronto Ontario (also, I believe, a place to find J. Courtland Elliott)
Konigun Ninjutsu - Bryce Dallas
Living Values - Jack Hoban
Long Island Ninjutsu Centers - Allie Alberigo in West Islip NY
Mat Helm's Bujinkan Budo Taijutsu
Nindo Ryu JuJutsu
Ninpo Dojo Wettingen - Marcel Benz's comprehensive Swiss Jissen Kobudo site (JKJ)
Ninja Village - Mei Tani and Umihei
Ninjutsu Dojo Listings
Ninjutsu - Art martial ou sport de combat? - Bernard Dordas and Michel Ortis
Martial Media Productions - Peter Vermeeren providens professional design and promotion of CDroms for Martial Artists
Mu-Te-Jinen-Ryu Ninpo Goshinjitsu - European Ninja - The Real Story by Bo Munthe
Ronald Duncan's Martial Arts Academy - Koga Ryu Ninjitsu in Jamaica NY - some good material
Shingo-Ryu BujutsuKai - Shingo-ryu Bujutsu Kai International - Mike Sadler. 
The Temple of the Full Autumn Moon - Shannon Kawika Phelps in San Diego, CA - yes!
Ten Chi Jin Genbudan Ninpo Dojo - Shoto Tanemura - bio and dojo listings
Tengu Dojo
Tew Ryu Ninjitsu - Rick Tew - there's the home study program, the College of Martial Science - a 3 - 12 month instructor level course in sunny CA, videos of course, and a whole bunch of on-line articles from 'Total Warrior' magazine
The Ninja Museum of Iga-ryu
Warrior Information Network - extensive!
Way of the Wind Shinobi-jitsu - Ninjitsu - nice page on personal safety, history - S. Griffin
Yoshii's Kajukenbo