The Elimination Phase of the Autoimmune Protocol (AIP)

A Clear, Updated, and Sustainable Guide to Phase Two

The Elimination Phase is the most recognizable part of the Autoimmune Protocol—and also the most misunderstood. This guide explains what the Elimination Phase actually is, why it exists, how long it should last, and how to approach it in a way that supports healing rather than burnout. You’ll learn the purpose of elimination, how it fits into the larger AIP framework, and how the updated 2024 guidelines introduce two clear pathways—Core AIP and Modified AIP—so you can choose the option that best fits your needs while still staying aligned with research and long-term sustainability.