Zuloaga's work can be seen in the world's most important museums, such as the Museés Royaux des Beaux-Arts in Belgium, Museé de Orsay, Museo Rodin and Museé National du Chateaux de Versailles in Paris, the Staatliche Museen in Berlin, Hermitage in St. Petersburg, the Metropolitan Art Gallery in New York, and the Fines Arts Gallery in Boston, Detroit Institute of Arts, the Modern Art Gallery in Moscow, Fine Arts Museum in Budapest, the National Art Galleries of Argentina, Chile and Cuba.

In Spain, the Museo Nacional Reina Sofía in Madrid, Museo Nacional de Arte in Catalunya, Museo de Bellas Artes in Bilbao, Getaria Local Council and the Carmen Thyssen Bornemisza Collection have major works by Zuloaga. Finally, the private galleries of Zumaia and Pedraza Castle contain a noteworthy collection of works from different periods in his life.