The modern study of resilience in development is conceptually based on a complex adaptive system ontology in which many (intersystem) factors are involved in the emergence of resilient developmental pathways. However, the methods and models developed to study complex dynamical systems have not been widely adopted, and it has recently been noted this may constitute a problem moving the field forward. In the present paper, I argue that an ontological commitment to complex adaptive systems is not only possible, but highly recommended for the study of resilience in development. Such a commitment, however, also comes with a commitment to a different causal ontology and different research methods. In the first part of the paper, I discuss the extent to which current research on resilience in development conceptually adheres to the complex systems perspective. In the second part, I introduce conceptual tools that may help researchers conceptualize causality in complex systems. The third part discusses idiographic methods that could be used in a research program that embraces the interaction dominant causal ontology and idiosyncratic nature of the dynamics of complex systems. The conclusion is that a strong ontological commitment is warranted, but will require a radical departure from nomothetic science.