This dataset includes the pore pattern measurements of calcareous benthic foraminifera to calibrate a proxy for reconstructing bottom water dissolved oxygen (BWDO) levels in the Southeast Pacific (SEP), complemented by environmental and biogeochemical data. Surface sediment samples collected between 1962 and 2014 span depths of 24–3,252 meters and latitudes from 12°S to 44°S off the coasts of Chile and Peru. These samples were obtained using various devices, including a multicorer (Sonne 156, Sonne 211, Meteor 92), a gravity core (Sonne 161), a Petersen grab (USNS Eltanin), and a box corer (BIAC072014). Specimens of six benthic foraminifera species (Cibicidoides wuellerstorfi, C. lobatulus, C. ungerianus, Planulina ariminensis, P. ornata, and P. limbata) were collected from the sediment samples. The specimens, dated recent (Holocene to modern), were imaged using Scanning Electron Microscopy (SEM) between March and December 2022. Pore pattern measurements were conducted using ImageJ software between March 2022 and March 2023, including porosity, pore density, and pore size. This study aims to validate benthic foraminifera pore patterns as proxies for reconstructing past BWDO levels. These are crucial for understanding current and future long-term ocean oxygenation trends due to climate change. This dataset provides a region-specific calibration for BWDO proxies, offering detailed insights into geological ocean conditions with an error margin of ±5–20 µmol/kg.