The run-off scenario mesocosm experiment was set-up 5 times in a total in three lakes: in Bolmen and Erken in summer 2022 and in Bolmen, Erken and Erssjön in spring 2023. The experiments used the SITES AquaNet mesocosm infrastructure connected to three of the constituent research stations (Bolmen, Erken, Skogaryd; all located in Sweden). All experiments lasted for a total of 37 days. Collection of protocols used in the SITES AquaNet-AQUACOSM-plus run-off variability mesocosm experiment can be found under the following URL: https://meta.fieldsites.se/collections/GGVOjZMkIzUz4i649iw8VjHc