Figured I'd put this back up now, and update it/add more series. So right now, these are series without NIWA wikis:
Ace attorney
Wiki was in the works around the time of WiKirby, Metroid Wiki, and Wars Wiki, but closed due to MYSQL errors.
Animal Crossing
Animal Crossing Wiki is up and running with over 1,000 articles.
Brain Age
Possibly not big enough for a wiki
Chibi-Robo!
I'm starting up Chibipedia, though it might not be NIWA-bound.
Custom Robo
Nothing planned from what I've seen.
F-Zero
F-Zero Wikia, planning to move.
Fire Emblem
Fire Emblem Wiki is in the works, and has a small community building up.
Game & Watch
Wiki is technically in the works, but user didn't realize Wikia wikis are ineligible.
Golden Sun
WaddleDude had plans, but doesn't have the money to start one independently from what I've read.
Kid Icarus
Palutenapedia is starting up, and is actually building up pretty well on Wikkii, the farm it's hosted on.
The Legendary Starfy
Heard some things about Wikia's moving, but no action.
Puzzle League
Nothing planned from what I've seen.
Punch Out
Nothing planned from what I've seen.
Touch! Generations
Touch! Generations Wiki is in the works on Wikkii just like Palutenapedia.
Fanon wikis
There is one, but I don't have the link.