See "Atkins For Life" pp. 53-59.
They state clearly that while they are not encouraging overconsumption of saturated fats, neither is there any reason to make a deliberate attempt to avoid them. They also state that you should attempt to get a balance of healthy fats in your diet, use caution in how you use different fats (not deep frying or heating them to very high temperatures) and include sources of Omega-3 fats in your menus.
I personally will never again bring margarine into my home. We use primarily olive oil and butter.
From Atkins For Life, pg. 62:
"When you are controlling your intake of carbohydrates, as you do on Atkins, there is no need to cut back on red meat and dark poultry. Nor need you take the skin off chicken or trim the fat off meat. In fact, protein should always be served with fat to ensure the absorption of vitamins and minerals. So, if you prefer to remove the skin on chicken, be sure to have some olive oil at the same meal. Processing can devitalize protein, just as it does fats and carbohydrates. You will get more nutritional bang for your buck with fresh meat, poultry, or fish."