EU biodiversity conservation policy is based on the Habitats Directive (92/43/EC), which aims that habitat types and species of Community interest should reach 'favourable conservation status'. To this end, Member States are obliged to perform periodic assessment of species and habitat conservation status through biodiversity monitoring, which, in almost all cases, was performed by experts implementing standardized field protocols. Here, we examine the quality of data collected in the field by non-experts (citizen scientists) for the conservation status assessment of habitat types, and specifically for the criteria 'typical species', 'specific structures and functions', and 'pressures and threats'. This task is complicated and demands different types of field data. We visited two Natura 2000 sites and investigated four habitat types (two in each site) with non-experts and compared their data to the data collected by experts for accuracy, completeness and spatial arrangement. The majority of the non-expert data were accurate (i.e. non-experts recorded information they observed in the field), but they were incomplete (i.e. non-experts detected less information than the experts). Also, non-experts chose their sampling locations closer to the edge of the habitat, i.e. in more marginal conditions and thus in potentially more degraded conditions, than experts.