In no particular order:
- DSi Klub. I'm biased on this one cuz I made it. :P
- DSi Plaza. Had the classic minimal, IP-based version as well as the later versions with extra features. Both were good for different reasons.
- DSi Cade. The one that got me into web development, even if I barely used the site later on.
- DSi Paint. Cool stuff with painting and later sprite creation, never did much with the community though.
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Another friend of mine from Paint told me about his DSi website: DSiWorld
(It's more of a utility-oreinted site than a social one, though.