Competition with fisheries and incidental capture in fishing gear are the major current threats for seabirds at sea. Fishing is a traditional activity in Portugal and is mainly composed of a great number of small vessels. Given the lack of knowledge on effects of the Portuguese fishing fleet on seabird populations, bycatch was assessed in mainland coastal waters for 2010–2012. Interviews and on-board data were divided into 5 strata, according to fishing gear: Bottom trawling, Bottom longline, Purse seine, Beach seine, Polyvalent (≥12 m) and Polyvalent (<12 m). Polyvalent included Setnets, Traps and Demersal longlines. Overall, 68 birds were recorded to be bycaught. The average catch per unit effort (CPUE) was 0.05 birds per fishing event. Polyvalent (<12 m), Polyvalent (≥12 m) and Purse seiners had the biggest seabird bycatch rates, with 0.5 (CPUE = 0.1), 0.11 (CPUE = 0.05) and 0.2 (CPUE = 0.11) birds per trip, respectively. Within Polyvalent gear, Setnets captured the largest diversity of seabird species (CPUE = 0.06), while Demersal longline had the highest CPUE (0.86). Northern gannet was the most common bycaught species. Although more observation effort is required, our results suggest that substantial numbers of Balearic shearwater might be bycaught annually, mainly in Purse seine and Setnets. © 2014 The Authors. Published by Elsevier B.V. This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/3.0/).