I am finishing up a large project using Laravel 4 and had to answer all of the questions you are asking right now. After reading all of the available Laravel books over at Leanpub, and tons of Googling, I came up with the following structure. One Eloquent Model class per datable table One Repository class per Eloquent Model A Service class that may communicate between multiple Repository classes.
![Managing relationships in Laravel, adhering to the repository pattern](https://cdn-ak-scissors.b.st-hatena.com/image/square/98d6f053a97a87156775f60757c60865d0f2c47d/height=288;version=1;width=512/https%3A%2F%2Fcdn.sstatic.net%2FSites%2Fstackoverflow%2FImg%2Fapple-touch-icon%402.png%3Fv%3D73d79a89bded)