If I can throw my 2 cents into this too, a couple pieces of advice:
#1 - Eat about 6-8 small meals throughout the day instead of the traditional 2-3 big meals a day with unhealthy snacks in between. Think of yourself like a grazing animal eating small bites throughout the day instead of lions who go long periods between meals, then gorge themselves so much they have to lay on their backs because their bellies are too full! The bigger the meal you eat in one sitting, the more energy your body uses to digest it and the more tired you become afterward.
Eating small portions throughout the day helps keep your insulin levels more balanced. Atkins talks about the importance of not letting your insulin levels spike.
I like to fix large portions of my meals and put them in those Glad reusable containers and just snack out of those throughout the day. I hardly use plates anymore!
#2 - Keep your body alkaline. Your blood pH has to be about 7.4 pH, so your combined food intake should be at that level, or a little bit higher alkaline. If people eat an acidic diet (fast food, sugary drinks, too much meats, not enough vegetables), their body's will start leaching minerals (which are mostly alkaline) from itself to keep their blood pH at the 7.4 level. Lot of holistic Dr's believe this self-leaching of minerals makes us susceptible to illness, especially cancer (some popular natural cancer treatments include using baking soda or cessium, both being very alkaline substances).
Of course the beginning phases of the Atkins diet are going to be very acidic since you'll be eating mostly meats. Between meals, you can take a little bit of baking soda to help offset the acid pH and it would be advisable to supplement you diet with a mineral complex. A mineral complex formula with trace mineral I hear are particularly effective.
It would also be best to use an alkaline water, such as "Kangen" water. Not only is it very alkaline, it's negatively charged, which keeps the water particles spaces apart more, so it can be absorbed easier into your cells.
#3 - I've been reading a lot about how the biggest cause of illness is stress. From there, I've been reading a lot about emotional health and reading up on the newer field of "energy medicine." What I keep coming across from the practitioners in this field is that they say there is a link between obesity and emotional traumas. People with severe emotional traumas from the past tend to develop addictions to things like drugs, or even food, to help numb them from the emotional pain. Here's
a list of these newer energy medicine techniques that deal with releasing emotional traumas.
#4 - As many here already stated, the optimum diet is the Primal/Caveman diet. It's how humans ate for thousands and thousands of years before modern technology started coming along and causing all this havoc! So leading into 4th phase of the Atkins diet, it would be advisable to make that transition into the Primal diet.
#5 - Gluten-Free. One of the benefits of the Primal diet is that it's gluten-free. Read up why being gluten-free is so important and how gluten causes inflammation inside the body, which along with being too acidic, is so detrimental to your health.
Good luck, Shane!