This article is concerned with synchronisation of complex stochastic dynamical networks in the presence of noise and functional uncertainty. A probabilistic control method for adaptive synchronisation is presented. All required probabilistic models of the network are assumed to be unknown, therefore estimated to be dependent on the connectivity strength, the state and control values. Robustness of the probabilistic controller is proved via the Lyapunov method. Furthermore, based on the residual error of the network states we introduce the definition of stochastic pinning controllability. A coupled map lattice with spatiotemporal chaos is taken as an example to illustrate all theoretical developments. The theoretical derivation is complemented by its validation on two representative examples.