Normative mapping is a framework used to map population-level features of health-related variables. It is widely used in neuroscience research, but the literature lacks established protocols in modalities that do not support healthy control measurements, such as intracranial electroencephalograms (icEEG). An icEEG normative map would allow researchers to learn about population-level brain activity and enable the comparison of individual data against these norms to identify abnormalities. Currently, no standardised guide exists for transforming clinical data into a normative, regional icEEG map. Papers often cite different software and numerous articles to summarise the lengthy method, making it laborious for other researchers to understand or apply the process. Our protocol seeks to fill this gap by providing a dataflow guide and key decision points that summarise existing methods. This protocol was heavily used in published works from our own lab (twelve peer-reviewed journal publications). Briefly, we take as input the icEEG recordings and neuroimaging data from people with epilepsy who are undergoing evaluation for resective surgery. As final outputs, we obtain a normative icEEG map, comprising signal properties localised to brain regions. Optionally, we can also process new subjects through the same pipeline and obtain their z-scores (or centiles) in each brain region for abnormality detection and localisation. To date, a single, cohesive dataflow pipeline for generating normative icEEG maps, along with abnormality mapping, has not been created. We envisage that this dataflow guide will not only increase understanding and application of normative mapping methods but will also improve the consistency and quality of studies in the field.