You know, his "Vita-Nutrient Solution" is probably his most neglected of books. From the way it's written, I'm fairly sure someone else compiled it, and he slapped his name on it. The sheer number of references makes it next to impossible that he did all that research, particularly as it largely predates the ability to access so many computer searches that are so simple to do today (1998, IIRC).
Pantethine is a metabolite of pantothenic acid anyway; I'm not sure taking both is necessary. Just alternate them if you're worried about taking too many pills- which, frankly, Atkins is strongly in favor of (i.e., taking too many pills). I admire his work, but I think it relies too strongly on supplements.
Some recommendations: an Atkins-type diet (as he notes) is highly effective at putting patients into remission, and keeping them there. However, it is made more effective by excluding all grains in their entirety. Keep the carbs low, exclude the grains, and go from there. That includes your soy milk- sorry. Recommended: fermented milk, as in "properly" fermented yogurt. I recommend the Gottschall approach from "Breaking the Vicious Cycle."
Probiotics like Saccharomyces boulardii, and E. coli Nissle (ECN), which is available as Mutaflor through one or two vendors here in the US.
Vitamin D: start at 5000 IU/day, work down to 2,000 to 3,000 IU/day once things calm down. Ideally one would get their serum values checked, aiming for 50-60 ng/mL.
Selenium: a natural TNF inhibitor. 100-200 mcg/day. Reimund et al., 2000.
Zinc sulfate, 110 mg/day, improved barrier function of the intestines, suppressed T-cells, and improved thymus function in 8 weeks (Ibs and Rink, 2004).
Fish oil: 5-15 mL/day.
Coconut oil: 1-3 tablespoons/day.
Binkley N, Novotny R, Krueger D, Kawahara T, Daida YG, Lensmeyer G, Hollis BW, Drezner MK. Low vitamin D status despite abundant sun exposure. J Clin Endocrinol Metab. 2007 Jun;92(6):2130-5. Epub 2007 Apr 10.
Hathcock JN, Shao A, Vieth R, Heaney R. Risk assessment for vitamin D. Am J Clin Nutr. 2007 Jan;85(1):6-18.
Ibs, KH, Rink, L. 2004. Zinc. In Hughes, David A., Gail Darlington, and Adrianne Bendich. 2004. Diet and human immune function. Totowa, N.J.: Humana Press.
Monaco, MD. 2004. Osteoporosis, nutrition, and the immune system. In Hughes, David A., Gail Darlington, and Adrianne Bendich. 2004. Diet and human immune function. Totowa, N.J.: Humana Press.
Pusztai A, Bardocz S. 1995. Lectins: Biomedical Perspectives. pp 155-182. Taylor and Francis, London.
Reimund JM, Hirth C, Koehl C, Baumann R, Duclos B. Antioxidant and immune status in active Crohn's disease. A possible relationship. Clin Nutr. 2000 Feb;19(1):43-8.
Sinclair HM. 1952. The diet of Canadian Indians and Eskimos. Proceedings of the Nutrition Society, 12: 69-82 Cambridge University Press