A data de-identification method, a data de-identification apparatus and a non-transitory computer readable storage medium executing the same are provided. Original data including an identification field, a condition field, and a record field is obtained. An event condition is obtained according to the condition field. From the original data, a plurality of event fragment sequences corresponding to each of a plurality of identification data and corresponding to the event condition are obtained according to the plurality of identification data in the identification field and the event condition. Sequence data is obtained according to the plurality of identification data and the plurality of event fragment sequences corresponding to each of the identification data. De-identification data is obtained by adjusting the sequence data.