The Iberian Margin, located in the mid-latitude North Atlantic at the western edge of the European continent, is a key region for climate and oceanographic research. The Portuguese western coast marks the northernmost boundary of the Canary Current upwelling system, experiencing seasonal wind-driven coastal upwelling from May to September. Eastern Boundary Upwelling Systems (EBUS) are among the most productive regions in the global ocean. They play a vital role in climate regulation and support both local and global fisheries. As part of the ICW3P project (PTDC/CTA-CLI/2884/2021) 'Impact of climate warming in the coastal upwelling system and primary production off Portugal: a study linking classical and emerging proxies', this study presents multi-proxy records from three inner-shelf sediment sequences. The project aimed to evaluate the sources of organic matter in the Iberian Margin and to reconstruct primary productivity and phytoplankton community variability over the past 1,000 years. This dataset presents pyrogenic polycyclic aromatic hydrocarbons (pyPAHs) from a sediment record collected west of the Tagus River mouth (POS-26B and -26G), in the central region of the Portuguese continental shelf, using box-core and gravity coring systems during the Poseidon cruise PO287 in 2002. Analyses were performed in 2025 at the Marine and Environmental Studies Lab (LABMAM) of PUC-Rio using gas chromatography coupled with mass spectrometry (GC-MS), Thermo Scientific, Trace1300-ISQ7000 system.