This paper investigates the relationship between the heterogeneity of the terrestrial carbon cycle and the optimal design of observing networks to constrain it. We combine the methods of quantitative network design and carbon-cycle data assimilation to a hierarchy of increasingly heterogeneous descriptions of the European terrestrial biosphere as indicated by increasing diversity of plant functional types. We employ three types of observations, flask measurements of CO<sub>2</sub> concentrations, continuous measurements of CO<sub>2</sub> and pointwise measurements of CO<sub>2</sub> flux. We show that flux measurements are extremely efficient for relatively homogeneous situations but not robust against increasing or unknown complexity. Here a hybrid approach is necessary, and we recommend its use in the development of integrated carbon observing systems.