Between 2013 and 2017, we carried out nine field missions in the Lago Grande de Curuai floodplain, located in Pará state – North of Brazil – to collect samples for monitoring surface water quality. This site separated from the river by a narrow bank is composed of a network of channels and shallow lakes, a morphology shared by the floodplains of the lower Amazon. A multiparameter probe was used in situ to measure electrical conductivity, temperature, pH, dissolved oxygen, chlorophyll, turbidity, depth and a Secchi disk to estimate transparency. Water grab samples were analysed for suspended material, alkalinity, humic acid, phosphorus, nitrogen, carbon and chlorophyll. Sampling stations were distributed over the seven larger lakes in the floodplain and sampled at different periods of the hydrological cycle. The number of samples varied with the floodplain water level, with a minimum of 25 samples for each field visit. This data set is a collection of water quality data to assist in the limnological or biogeochemical studies of surface waters in Amazonian floodplain lakes, and the product of successive French‐Brazilian projects: (1) the Clim‐FABIAM ‘Climate changes and Floodplain lake biodiversity in the Amazon Basin: how to cope and help the ecological and economic sustainability’ funded by the French Foundation for biodiversity research (FRB), (2) the project Bloom‐ALERT –‘Environmental sensitivity and population health vulnerability to cyanobacteria in the Amazon: towards shared indicators’ funded by the French‐Brazilian research program GUYAMAZON 2014, and the project (3) ‘Ecossistemas das várzeas e biodiversidade: Impactos das mudanças ambientais e climáticas considerando cenários de desenvolvimento sustentáveis’ (Project number 490634/2013‐3) funded by the Brazilian National scientific Research Council CNPq.