You act as if Sakura is perfect in chakra control. Yes she can use the yin seal. Yes she was taught to focus chakra into her hands by tsunade. Yes Kakashi praises her for chakra control. But she's not perfect.
A lot of the stuff you bring up is chakra control feats from part 1, of walking on trees. This honestly does show chakra control ability, but Naruto practice and has surpasssed Sakura in chakra control through his training. Also notice how Kakashi says she is better at chakra control "right now". That doesn't mean it's not able to change, it isn't set in stone.
You point out that picture of Tsunade saying you need to have every aspect of chakra control refined to perfection, yet somehow Sakura can't do a direct chakra transfer? Tsunade can. Naruto can. Her knowing the yin seal and not direct chakra transfer (when she studied under Tsunade for the whole of the timeskip) really shows how hard direct chakra transfer must be. And Naruto gave that chakra out to all the ninjas in the alliance. Naruto's also able to transfer chakra unconciously through a link (as shown when he does so to shikamaru). This is the same sort of thing Sakura does with katsuyu, except naruto can do both the remote and direct version. Since she can't do this technique that tsunade and Naruto can, it shows that Sakura isn't as skilled as Naruto at learning techniques, even ones requiring precise chakra control. It also shows her chakra control isn't perfect, like Tsunade said. Also who is to say transforming chakra isn't chakra control? If you can't transform your chakra to meet someone elses needs, you obviously can't control it well enough to do so.
Naruto also learned the direct chakra transfer version on the battlefield when he needed to, when Sakura needed to save Shikamaru she wasn't able to learn it like naruto was. Really shows the skill Naruto has really.
You also bring up the TBB. Naruto is the first person ever to hold a TBB in the palm of his hand, and is essentially developing the technique. He clearly says he learns from experience, which is one reason why he masters is it on the battelfield (another reason is because the kyuubi becomes friendly, and doesn't restrict him at all anymore). After the kyuubi becomes friendly and stops disturbing his chakra (however large or small that disturbance may be) it definitely allows him for better chakra control.
I would also like to bring up the rasengan. Tsunade believed that only Minato and Jaraiya could even learn the rasengan. That's how hard the technique is to learn. Yet Naruto was able to perform rasengan in about 1 months time of training. Jaraiya also makes a specific remark to how Naruto burned his hand by concentrating so much chakra into one spot (which happens to be about the size of the yin seal, and shows precise chakra control). This shows that if Naruto wanted to learn the yin seal, and Tsunade was willing to teach him, he probably could. It also shows the chakra control required to perfect rasengan since Tsunade thought only two people could possibly learn it. Kakashi also later states that Rasengan is the pinnacle of spatial chakra control. Naruto mastered the most powerful spatial chakra control technique, while a genin (damn what a chakra control beast).
Later Naruto adds Nature transformation to the rasengan. Which is another form of chakra control. Yes he does it a quicker way by using the large amount of chakra he has, but Kakashi clearly states that Naruto was progressing faster than he thought possible. Naruto gets so good at using his chakra nature of wind he is able to cut a waterfall.
Lets also bring sage mode into account here. In order to make chakra your physical and spiritual energy into chakra. In order to make chakra as a sage your balance between Natural, spiritual, and physical energy must be almost perfect. Naruto however perfects the sagemode technique, unlike jaraiya. Naruto masters sage mode in a matter of days (time isn't exactly clear, but it is rather short). Then he learned to apply sage mode chakra to his techniques which is a form of chakra control, later on in the war he found out he could apply it to nearly all of his techniques. Learning sagemode and perfecting it in itself shows a clear control over chakra, yes chakra. Not just natural energy, but chakra. I say chakra because Sage mode chakra is special, another person can not just be handed sage mode chakra, as they will turn into a frog (shown when pein turns into a stone frog). This shows you must be controlling natural chakra near perfectly in order to perform sage mode (and Naruto learned it so fast too)
Naruto also quite litterally controls his chakra in bm or any of his other kyuubi chakra modes to a great extente. He controls it so precisely he is able to stack the tip of a pyramid on top of the tip of another pyramid, which is pretty damned impressive. Yes sakura doesn't have the ability to do this because she doesn't have as much chakra as Naruto, but I doubt she would learn as quickly as Naruto did. Naruto is shown to be able to be able to learn extremely advanced techniques really quickly, while we haven't seen Sakura display the same feat.
Naruto is better than Sakura in chakra control now, he has been growing over the years and has grown and surpassed her from when Kakashi first said she was the best.
Regardless, the more I think about it The juubito is still the best person at chakra controlling we have seen. Juubito solos.
Edit: If you need pics for anything regarding my post, just ask I will gladly provide.
