You can do EE all the way throught your weight loss. It mainly teaches you how a balanced diet works, so you can eat all foods that on green and red were free, but 1/3 of your plate must be superfree. this is so that you dont over eat on the free foods. I know that sounds silly because they are free. also you should only eat till you are satisfied, not till you are stuffed.
Do you have a book on EE?