With E3 around the corner I thought I'd make a compilation of what we know Nintendo is working on, and has the potential to develop. Thanks to Shikamaru Ninja for most of the 1st Party structure, if he's around, or anybody else has any info, additions would be welcome.
[Updated with more info about Nintendo's internal teams, thanks to Shikamaru Ninja.]
First of all, here's what Iwata had to say when the 2006-07 financial results came out:
Nintendo's 1st party teams
EAD Software Development Group No. 1 - Hideki Konno
(Nintendogs, Mario Kart DS)
Potential for more than one game:
- Wii Health
- Mario Kart Wii probable
- Wii Cooking Game was being worked on
EAD Software Development Group No. 2 - Katsuya Eguchi
(Animal Crossing Wild World, Wii Sports, Wii Play)
Potential for more than one game:
- Animal Crossing Wii
- Wii Motor Sports
- Wii Music
EAD Software Development Group No. 3 - Eiji Aonuma
(Zelda Twilight Princess, Zelda Phantom Hourglass)
Potential for more than one game:
- Zelda Wii
EAD Software Development Group No. 4 - Hiroyuki Kimura
(Yoshi Touch & Go, New Super Mario Bros., Big Brain Academy)
Potential for more than one game:
- New Super Mario Bros. 2 is a possible title for DS
EAD Software Development Group No. 5 - Takao Shimizu
(Donkey Kong Jungle Beat)
Potential for more than one game:
- Super Mario Galaxy
Software Planning and Development Division No. 1 - Yoshio Sakamoto
(Metroid Fusion, Rhythm Tengoku, WarioWare Smooth Moves)
Potential for more than one game:
- Metroid Dread DS is a possible title for DS
Software Planning and Development Division No. 2 - Hitoshi Yamagami
(Dr. Mario, Super Princess Peach, Tetris DS)
A small team capable of making one game at a time in house, also works with external developers:
- Dr. Mario Wii has been given an ESRB rating so is a possible title
Software Planning and Development Division No. 3 - Kensuke Tanabe
(Metroid Prime 1 & 2, Battalion Wars)
Supervisory team responsible for many titles including Metroid Prime 3 and Battalion Wars Wii (see below):
Software Planning and Development Division No. 4 - Shinya Takakashi
(Brain Training, English Training, Kanji Training, Band Bros.)
A very prominent group, capable of making more than one game at once:
- Wii Channels
Intelligent Systems
(Advance Wars, Fire Emblem, Paper Mario)
Potential for more than one game:
- Adult Face Training DS (with camera)
- New Fire Emblem games for Wii and DS have been hinted at
Game Freak
(Pokémon handheld RPGs, Drill Dozer)
Potential for more than one game:
- Pokémon Emerald equivalent for Diamond and Pearl likely to be in development
HAL Laboratory Inc.
(Kirby, Smash Brothers)
Potential for more than one game:
- Kirby Wii
Genius Sonority - Manabu Yamana
(Pokémon XD, Pokémon Trozei, Pokémon Battle Revolution)
Potential for more than one game:
- Dragon Quest Swords (with Square Enix and 8ing)
Brownie Brown
(Magical Vacation, Heroes of Mana)
Potential for more than one game:
Monolith Soft - Hirohide Sugiura
(Xenosaga, Baten Kaitos)
Potential for more than one game:
- New Wii game already hinted at
- Disaster: Day of Crisis
Retro Studios - Michael Kelbaugh
(Metroid Prime 1 & 2)
Potential for more than one game:
- Working on an unannounced Wii title
- Metroid Prime 3
Nintendo Software Technology Corp. - Shigeki Yamashiro
(1080 Avalanche, Metroid Prime Hunters, Mario vs Donkey Kong 2)
Potential for more than one game:
- Project H.A.M.M.E.R. - may be cancelled
Nintendo Studio (All-Star Smash Group - EAD/HAL Labs/Sora + another team)
Nintendo staff will likely move to the bigger Nintendo Tokyo Office once SBB is completed and continue developing games as a team (e.g. Smash Bros. DS is a possible title):
- Smash Bros. Brawl
3rd party teams (2nd party agreements) published by Nintendo (possibly or probably managed by SPD 3)
Kuju
(Battalion Wars)
Multiple Wii games in development (thanks to fly high ~ayunite~):
- Battalion Wars Wii
Paon
(Donkey Kong King of Swing)
- Donkey Kong Jet Race
Arika
(Street Fighter EX)
- Forever Blue
Skip
(Giftpia, Chibi Robo)
- Chibi Robo DS
- Potentially working on a Wii game
Sega
- Mario & Sonic at the Olympic Games
- F-Zero Wii or other collaboration, Nagoshi said he could work with Nintendo again
Mistwalker
- ASH (thanks to duckroll)
3rd Parties likely developing games published by Nintendo:
- Artoon - Yoshi's Island Wii has been hinted at by the YIDS producer
- N-Space - Making games/a game for Wii (thanks to thefro)
- Noise - Custom Robo Wii or a new game
- Monster Games - Developed Excite Truck so another Wii title is possible
- Next Level Games - Developed Mario Strikers Charged so another Wii title is possible
- 8ing - Potential for another game in addition to their work on DQS
- Cing - Already working on the Project O joint development and has said they would like to work more on Wii
- Mitchell - Developed many puzzle games for DS, possibly developing a game for Wii
- iNiS - Good with innovative control schemes as seen in Ouendan/EBA, which has become a success, so development on Wii is possible
- Agenda - Developed 42 All Time Classics which has been a big hit, so a similar Wii game is possible
- Namco Bandai - Developed Mario Baseball for GC so a Wii version is possible
- ? - Mario Golf Wii
- ? - Mario Tennis Wii
If a game has already been released in any region I've not included it, like Fire Emblem GoD or Zelda Phantom Hourglass. Interestingly, DS titles are few and far between, with only the possibility of Magkid, the motion sensing DS game, being developed internally.
3rd party published
http://wiiz.fr/article.php?a=11944
http://www.gamesindustry.biz/content_page.php?aid=26402
Wii
Activision
Guitar Hero III
Tony Hawk's Proving Ground
Atari
Dragon Ball Z: Budokai Tenkaichi 3
Godzilla Unleashed
Jenga
Capcom
Resident Evil: The Umbrella Chronicles
Zack & Wiki: Quest for Barbaros' Treasure
Crave
Brunswick Pro Bowling
Dave Mirra BMX Challenge
Pinball Hall of Fame: The Williams Collection
D3 Publisher
Ben 10: Protector of Earth
Dragon Blade: Wrath of Fire
Naruto: Clash of Ninja Revolution
Disney Interactive Studios
High School Musical: Sing It!
Electronic Arts
Boogie
NBA Live 08
Madden NFL 08
Tiger Woods PGA Tour 08
Need for Speed ProStreet
EA Playground
MySims
The Simpsons
FIFA 08
Gamecock
Mushroom Men
Konami
To be announced
LucasArts
LEGO Star Wars: The Complete Saga
Natsume
Harvest Moon Wii
SEGA
The Golden Compass
Mario & Sonic at the Olympic Games
NiGHTS: Journey of Dreams
Sierra Entertainment
Crash of the Titans
Geometry Wars: Galaxies
Square Enix
To be announced
Take-Two
Sid Meier's Civilization Revolution
THQ
WWE SmackDown vs. Raw 2008
Ubisoft
To be announced
Warner Bros. Interactive
Looney Tunes: Acme Arsenal
Nintendo DS
Atari
Godzilla Unleashed
Capcom
Mega Man Star Force: Dragon/Leo/Pegasus
Mega Man ZX Advent
Phoenix Wright: Ace Attorney Trials and Tribulations
Codemasters
Race Driver: Create & Race
Crave
Napoleon Dynamite
Spelling Challenges and More!
D3 Publisher
Ben 10: Protector of Earth
Naruto: Path of the Ninja
Disney Interactive Studios
High School Musical: Makin' the Cut
Electronic Arts
Madden NFL 08
Tiger Woods PGA Tour 08
Need for Speed ProStreet
EA Playground
MySims
The Simpsons
FIFA 08
Gamecock
Dementium: The Ward
Mushroom Men
Insecticide
Konami
To be announced
LucasArts
LEGO Star Wars: The Complete Saga
Star Wars: The Force Unleashed
Majesco Entertainment
Fish Tycoon
Holly Hobbie & Friends
Nancy Drew and the Deadly Secret of Olde World Park
Operation: Vietnam
Turn it Around
The Wild West
Natsume
Harvest Moon 2
Harvest Moon DS Cute
Math Play
Puzzle de Harvest Moon
River King: Wonderland
Rune Factory: A Fantasy Harvest Moon
SEGA
The Golden Compass
Mario & Sonic at the Olympic Games
Sierra Entertainment
Geometry Wars: Galaxies
Square Enix
To be announced
Take-Two
Sid Meier's Civilization Revolution
Ubisoft
To be announced
Warner Bros. Interactive
Looney Tunes: Duck Amuck
[Updated with more info about Nintendo's internal teams, thanks to Shikamaru Ninja.]
First of all, here's what Iwata had to say when the 2006-07 financial results came out:
So, whether Nintendo reveals a great deal or not, they are working on many titles both internally and with 3rd parties (through 2nd party, per game deals)....we believe that the video game platform business is a business of momentum. Once you gain momentum, consumers can feel comfortable in choosing your machine. Software makers feel secure to make the applicable titles. These attitudes will further create a positive cycle, like a chain reaction. But if the mood starts to go in the opposite direction, you have to fight against headwind. So, trying to make one brand-new proposal after another in the first and second years, when the platform is still in its infancy, is always important. With the unprecedented challenges our new platforms have, creating launch momentum was critical for both Wii and DS, and I believe it was Nintendo's internal developers' jobs to make that happen. Once our own developers start the momentum, the third-party software makers will expand the applicable software lineup. In my mind, this is the basic structure of how it should be.
Frankly speaking, Wii unfortunately did not receive as much positive anticipation as we had hoped it would before the launch. Accordingly, Nintendo had to rely upon its first-party titles to create the momentum.
As of today, however, between the first-party and second-party titles alone that will be sold under Nintendo's brand name, we have 45 titles for Wii and 79 titles for DS under development. Of course, I cannot say that all these titles will definitely be sold eventually, but these titles were actually given development budgets, specific development teams have been assigned and they are developing the games. So, these titles will be launched one after another.
Back to your question of when we will fulfill the hard-core gamers' titles lineup: It will be from around the end of this summer to the end of this year. We will then launch a new title of Super Mario (Super Mario Galaxy), Smash Brothers (Super Smash Bros. Brawl) and Metroid Prime (Metroid Prime 3: Corruption) although the last one is primarily for the overseas markets. These will be the key titles for the period ranging from the summer until the holiday sales season of this year, and I think we will be able to cater to the specific needs you mentioned.
Ideally, we should have had one such title already in the spring in order to create a better flow. At the same time, we are strongly holding the belief that we must raise the quality level if we need to introduce something new to our customers. We wanted to avoid a situation where these flagship titles were introduced when they were not perfectly tuned up. Please allow us that it is taking time.
Nintendo's 1st party teams
EAD Software Development Group No. 1 - Hideki Konno
(Nintendogs, Mario Kart DS)
Potential for more than one game:
- Wii Health
- Mario Kart Wii probable
- Wii Cooking Game was being worked on
EAD Software Development Group No. 2 - Katsuya Eguchi
(Animal Crossing Wild World, Wii Sports, Wii Play)
Potential for more than one game:
- Animal Crossing Wii
- Wii Motor Sports

- Wii Music

EAD Software Development Group No. 3 - Eiji Aonuma
(Zelda Twilight Princess, Zelda Phantom Hourglass)
Potential for more than one game:
- Zelda Wii
EAD Software Development Group No. 4 - Hiroyuki Kimura
(Yoshi Touch & Go, New Super Mario Bros., Big Brain Academy)
Potential for more than one game:
- New Super Mario Bros. 2 is a possible title for DS
EAD Software Development Group No. 5 - Takao Shimizu
(Donkey Kong Jungle Beat)
Potential for more than one game:
- Super Mario Galaxy

Software Planning and Development Division No. 1 - Yoshio Sakamoto
(Metroid Fusion, Rhythm Tengoku, WarioWare Smooth Moves)
Potential for more than one game:
- Metroid Dread DS is a possible title for DS
Software Planning and Development Division No. 2 - Hitoshi Yamagami
(Dr. Mario, Super Princess Peach, Tetris DS)
A small team capable of making one game at a time in house, also works with external developers:
- Dr. Mario Wii has been given an ESRB rating so is a possible title
Software Planning and Development Division No. 3 - Kensuke Tanabe
(Metroid Prime 1 & 2, Battalion Wars)
Supervisory team responsible for many titles including Metroid Prime 3 and Battalion Wars Wii (see below):
Software Planning and Development Division No. 4 - Shinya Takakashi
(Brain Training, English Training, Kanji Training, Band Bros.)
A very prominent group, capable of making more than one game at once:
- Wii Channels
Intelligent Systems
(Advance Wars, Fire Emblem, Paper Mario)
Potential for more than one game:
- Adult Face Training DS (with camera)
- New Fire Emblem games for Wii and DS have been hinted at
Game Freak
(Pokémon handheld RPGs, Drill Dozer)
Potential for more than one game:
- Pokémon Emerald equivalent for Diamond and Pearl likely to be in development
HAL Laboratory Inc.
(Kirby, Smash Brothers)
Potential for more than one game:
- Kirby Wii

Genius Sonority - Manabu Yamana
(Pokémon XD, Pokémon Trozei, Pokémon Battle Revolution)
Potential for more than one game:
- Dragon Quest Swords (with Square Enix and 8ing)

Brownie Brown
(Magical Vacation, Heroes of Mana)
Potential for more than one game:
Monolith Soft - Hirohide Sugiura
(Xenosaga, Baten Kaitos)
Potential for more than one game:
- New Wii game already hinted at
- Disaster: Day of Crisis

Retro Studios - Michael Kelbaugh
(Metroid Prime 1 & 2)
Potential for more than one game:
- Working on an unannounced Wii title
- Metroid Prime 3

Nintendo Software Technology Corp. - Shigeki Yamashiro
(1080 Avalanche, Metroid Prime Hunters, Mario vs Donkey Kong 2)
Potential for more than one game:
- Project H.A.M.M.E.R. - may be cancelled

Nintendo Studio (All-Star Smash Group - EAD/HAL Labs/Sora + another team)
Nintendo staff will likely move to the bigger Nintendo Tokyo Office once SBB is completed and continue developing games as a team (e.g. Smash Bros. DS is a possible title):
- Smash Bros. Brawl

3rd party teams (2nd party agreements) published by Nintendo (possibly or probably managed by SPD 3)
Kuju
(Battalion Wars)
Multiple Wii games in development (thanks to fly high ~ayunite~):
- Battalion Wars Wii

Paon
(Donkey Kong King of Swing)
- Donkey Kong Jet Race

Arika
(Street Fighter EX)
- Forever Blue

Skip
(Giftpia, Chibi Robo)
- Chibi Robo DS
- Potentially working on a Wii game
Sega
- Mario & Sonic at the Olympic Games
- F-Zero Wii or other collaboration, Nagoshi said he could work with Nintendo again
Mistwalker
- ASH (thanks to duckroll)
3rd Parties likely developing games published by Nintendo:
- Artoon - Yoshi's Island Wii has been hinted at by the YIDS producer
- N-Space - Making games/a game for Wii (thanks to thefro)
- Noise - Custom Robo Wii or a new game
- Monster Games - Developed Excite Truck so another Wii title is possible
- Next Level Games - Developed Mario Strikers Charged so another Wii title is possible
- 8ing - Potential for another game in addition to their work on DQS
- Cing - Already working on the Project O joint development and has said they would like to work more on Wii
- Mitchell - Developed many puzzle games for DS, possibly developing a game for Wii
- iNiS - Good with innovative control schemes as seen in Ouendan/EBA, which has become a success, so development on Wii is possible
- Agenda - Developed 42 All Time Classics which has been a big hit, so a similar Wii game is possible
- Namco Bandai - Developed Mario Baseball for GC so a Wii version is possible
- ? - Mario Golf Wii
- ? - Mario Tennis Wii
If a game has already been released in any region I've not included it, like Fire Emblem GoD or Zelda Phantom Hourglass. Interestingly, DS titles are few and far between, with only the possibility of Magkid, the motion sensing DS game, being developed internally.

3rd party published
http://wiiz.fr/article.php?a=11944
http://www.gamesindustry.biz/content_page.php?aid=26402
Wii
Activision
Guitar Hero III
Tony Hawk's Proving Ground
Atari
Dragon Ball Z: Budokai Tenkaichi 3
Godzilla Unleashed
Jenga
Capcom
Resident Evil: The Umbrella Chronicles
Zack & Wiki: Quest for Barbaros' Treasure
Crave
Brunswick Pro Bowling
Dave Mirra BMX Challenge
Pinball Hall of Fame: The Williams Collection
D3 Publisher
Ben 10: Protector of Earth
Dragon Blade: Wrath of Fire
Naruto: Clash of Ninja Revolution
Disney Interactive Studios
High School Musical: Sing It!
Electronic Arts
Boogie
NBA Live 08
Madden NFL 08
Tiger Woods PGA Tour 08
Need for Speed ProStreet
EA Playground
MySims
The Simpsons
FIFA 08
Gamecock
Mushroom Men
Konami
To be announced
LucasArts
LEGO Star Wars: The Complete Saga
Natsume
Harvest Moon Wii
SEGA
The Golden Compass
Mario & Sonic at the Olympic Games
NiGHTS: Journey of Dreams
Sierra Entertainment
Crash of the Titans
Geometry Wars: Galaxies
Square Enix
To be announced
Take-Two
Sid Meier's Civilization Revolution
THQ
WWE SmackDown vs. Raw 2008
Ubisoft
To be announced
Warner Bros. Interactive
Looney Tunes: Acme Arsenal
Nintendo DS
Atari
Godzilla Unleashed
Capcom
Mega Man Star Force: Dragon/Leo/Pegasus
Mega Man ZX Advent
Phoenix Wright: Ace Attorney Trials and Tribulations
Codemasters
Race Driver: Create & Race
Crave
Napoleon Dynamite
Spelling Challenges and More!
D3 Publisher
Ben 10: Protector of Earth
Naruto: Path of the Ninja
Disney Interactive Studios
High School Musical: Makin' the Cut
Electronic Arts
Madden NFL 08
Tiger Woods PGA Tour 08
Need for Speed ProStreet
EA Playground
MySims
The Simpsons
FIFA 08
Gamecock
Dementium: The Ward
Mushroom Men
Insecticide
Konami
To be announced
LucasArts
LEGO Star Wars: The Complete Saga
Star Wars: The Force Unleashed
Majesco Entertainment
Fish Tycoon
Holly Hobbie & Friends
Nancy Drew and the Deadly Secret of Olde World Park
Operation: Vietnam
Turn it Around
The Wild West
Natsume
Harvest Moon 2
Harvest Moon DS Cute
Math Play
Puzzle de Harvest Moon
River King: Wonderland
Rune Factory: A Fantasy Harvest Moon
SEGA
The Golden Compass
Mario & Sonic at the Olympic Games
Sierra Entertainment
Geometry Wars: Galaxies
Square Enix
To be announced
Take-Two
Sid Meier's Civilization Revolution
Ubisoft
To be announced
Warner Bros. Interactive
Looney Tunes: Duck Amuck