right. but a game must have commercial success to become that. Wii series was, I think N hoped for other to become, but the market not always replies in a good way to new project. so, not always a flagship is determined by initial plans, but sometime it depends also on market response.
Btw, on the DS there were various flagship titles for that console, that were new IPs.
I think that the issues with Neogaf perception is more subtle. Probably it's not that there was no flagship new IP, but that the new falgship wasn't under those genres that neogaf loves.
You two basically explained it, when combining the explanations. It's not that Nintendo has done no new IPs, but the IPs aren't anything even remotely comparable to, say, how little Sony relies on even remotely Mario-like long lasting franchises and tries to push some new stuff like Heavy Rain, Journey, Beyond, Puppeteer, Rime, inFamous, Uncharted, Last of Us, Knack, Gravity Rush, Last Guardian, The Order etc. Nintendo's best new IPs are mostly stuff like Ouendan and Pushmo, which are great, but people would love for them to put as much effort into some new IP as they do towards every Zelda. And when Nintendo does hit it big, it's stuff like Wii Sports, which a lot of people don't care about if they could choose between Wii Sports and, say, Metroid Prime 4.
EDIT: Oh, and while it's great that Nintendo publishes games like Bayonetta 2 & The Wonderful 101, it's somewhat understandable if people keep them out of the "Nintendo does nothing but Mario" arguments. They aren't internally developed games, not in the same way as if Nintendo put Sakurai with a Smash Bros like big team to develop a completely new game series. People want to see the minds behind Zeldas, Marios, Metroids etc. on completely new things more in the way Naughty Dog has gone from Crash Bandicoot to Jak & Daxter to Uncharted to The Last of Us, instead of being stuck to old IPs.
Xenoblade is surely one of those. and looking at the treatment reserved to Xenoblade X I think that finally also NoA understood that ;p
Btw, a lot of people tend to look only at Splatoon, while I think that for different reasons, also Captain Toad and especially STEAM could be considered like that.
Captain Toad is a Mario spin-off with gameplay ripped straight from a mainline Mario game. I really wouldn't put him in the same realm of new IPs as Xenoblade or even Pushmo. It's still trying to push the Mario IP down people's throats.