Native performance is wrong, javascript (unless it's like asm.js or something) will never be "native performance".
All CocoonJS is, is just a OpenGL layer with html/css/javascript support. And while it is faster then just flat out using JSC. It is not faster then c/objective c + opengl.
There have also been several reports of CocoonJS actually being slower then UIWebView. A simple google search for "cocoonjs performance" returned several issues.