Both Kendo UI and WinJS are separate mobile application frameworks and as such, their framework parts - the app initialization, navigation and rendering - cannot work together. Usually such frameworks consist of two parts - a framework and controls. The most clean solution would be to just use one or the other, not the two combined, but you can also choose one of the two to be your main framework and simply use the controls from the other. However, nobody can guarantee that the controls from one framework will work flawlessly out of the box with another framework as a base. Even if they work now, there is no guarantee they will work in the future.
Let me know if you have any further questions.