The usual problem with DJB's implementations is not that they're incorrect or slow or insecure -- far from it! -- but that they're awkward to integrate with the rest of the world, may require weird build configurations, and are hard for anybody else to modify. Well, TweetNaCl is really easy to integrate with the rest of the world, since it's just a single portable .c file, and the speed is surprisingly good, and its functionality and API are stable enough that you probably don't need to modify it.

So, I don't see the problem here. If these guys had tried to cobble together a replacement for NaCl out of pieces like the curve25519-donna code, that would be a problem, because there's more potential to screw that up.