This paper aims to cross-compare existing estimation methods for the Macroscopic Fundamental Diagram. Raw data are provided by a mesoscopic simulation tool for two typical networks that mimic an urban corridor and a meshed urban center. We mainly focus on homogenous network loading in order to fairly cross-compare the different methods with the analytical reference. It appears that the only way to estimate the MFD without bias is to have the full information of vehicle trajectories over the network and to apply Edie's definitions. Combining information from probes (mean network speed) and loop detectors (mean network flow) also provides accurate results even for low sampling rate (