Welcome.
Yes the plan and the cookbook do have some inconsistencies, so you aren't the only one confused.
The accompaniments they are suggesting aren't for all Waves, just think of it as Serve with ideas. I don't think they are saying that every side dish is right for Wave one, but rather it would be a good mix of nutrients with the particular meal or would be a good culinary compliment If you are on Wave one, you'll have to avoid wave 2 recipes. Wave One meals are suitable for Wave 2 and 3, with additions, but Wave 2 and Wave 3 meals are suitable for Wave 1. Pick a wave one side dish for a wave one meal etc
This might clarify things a bit .. this thread might help.
http://www.3fatchicks.com/forum/showthread.php?t=71128
During Wave 1, lunch will consist of 40% protein and 60% Tier 1 vegetables. Dinner includes 30% protein, 20% grains, and 50% Tier 1 vegetables So lunches will be ones higher in protein and no grains, at least for Wave 1.
But please don't get too hung up on the ratios. The main thing is to train ourselves to stay away from processed foods, white flour, white sugar and eat a more healthy diet. The ratios aren't a magical formula for weight loss. If you are 5% higher in one area one day, and 5% lower in another area another day, it will all even out.