By critically evaluating recent advances in methods and data analysis techniques in three areas of earthworm research we highlight that combinations of common approaches often offer the most significant insights into the functional roles of earthworms within a soil system. Through particular reference to earthworm sampling and identification, biochemical functions and persistent pollutant ecotoxicology of temperate ecosystems we emphasise how a range of investigation methods can be a hindrance to developing a whole-system level understanding. The complex and diverse nature of soil systems means that a traditional compartmentalised approach studying single species using a single research technique is no longer sufficient to gain further insights into the earthworm contribution to ecosystem goods and services delivered at the whole landscape scale. The integration of technologically advanced methods in combination with systems based modelling will be critical to develop landscape scale understanding of the functions of earthworms as individuals and as populations within in their ecosystems.