Naruto wasn't around to become higher so everybody else is higher then Genin except him. Naruto is extremely more stronger then he was when he defeated Neiji last time. Plus all the training he did with Kakashi and the clone of the 1st. Naruto would still beat Neiji without using any tails. But that's neither here nor there because it says Naruto when he fought Sasuke at the waterfalls against Neiji during the Chunin Exams. Which is a big disadvantage for Neiji imo.