Kishimoto made a mistake.
part 1 or 2
Now that the Kyuubi chakra has been subverted and is working with Naruto rather than against him he has developed greater chakra control. As Jaraiya stated in a much earlier chapter while he was training Naruto, the reason Naruto had poor chakra control was because of the Kyuubi's chakra feeding on his yin chakra and subsequently taking it's place.
hey guy, go and watch that episode.....he made the clones in sage mode and as he was doing it, his clones hands were directed towards him...He did it with his clones.
Naruto is not skilled enough to concentrate three different types of chakra manipulation at the same time.
That is why he has to create 1 to 2 clones to help him.
one focus's on one type, and so on.
It occurred at 16:55 of episode 168, his clones were somewhat a good distance from the original body. I can see where OP was confused but his 2 clones helped with the formation of it. Once you see both clones you notice their hands extended towards Naruto helping mold the rasenshuriken.