Cleaning up main timeline

K i didnt think this would get this messy. im making a flash site… And i got MCs in their own layers on the main timeline. I got like 6 frames, with like a billion layers. I have transitions covering up the main site and uncovering. Maybe i can make each frame with all its layers(except transitions) in its own MC. so it would be 6 frames with only 6 layers or something. the other layers would be for the transitions and a menu. Whole reason i want to do this is so i can make a menu without sifting through all the layers. Can i just copy and paste those frames into single MCs. Im confusing arent i?