The thing with Iwata is that while he is very humble, honest and blunt in his manner of speaking about Nintendo and industry (which is why I love hearing him talk), and likely very truthful in what he feels Nintendo needs to do, it doesn't always match up with how it is executed.
Pre-Wii there was a ton of talk from Iwata and co about how they were going to persue a stronger online, particularly in the 'always on' state of the Wii and how updates would flow in for games and the system. This never materialised in any respect.
The 3DS is early days, but they've said similar things that we're hearing now. "Better online, more third party support". Their online network hasn't rolled out and we dont even know exactly when it will or what it will contain, which is pretty dreadful, and we're still in somewhat of a limbo when it comes to third party support as a vast majority of the good stuff is coming from Capcom. This is hard to judge as the system only just launched a lot will likely be revealed at E3, but it's another example of a system not quite matching the promises, at least not yet.
When Iwata says that the Wii had a problem with third parties, and that Nintendo needs help with online, I dont doubt that he is absolutely truthful. When he says they will persue these two things more aggressively, I dont doubt that they will. The problem is Nintendo has a tendency to live inside a strange little bubble, and their perception of a 'good' online wont necessarily match what the market needs.
Friend codes are probably the best example. That 1up article can speculate all it likes, but I just cant see Nintendo ditching a system they seem so confident using, not when their most recent platform rolled out with the exact same framework. Fact of the matter is no matter how good the online service will be, as long as there are friend codes there will always be a stigma.
We'll see at E3 I guess. I do very, very little online gaming on consoles so it's not a big issue for me, but if there's one big area that I'm not confident Nintendo will deliver on, no matter the promises, it is online.