Paleoecologic (paleoclimatologic) and biostratigraphic studies of pelagic and deep-water deposits rely on the identification of planktonic foraminifera. Here we report and compare the results of planktonic foraminiferal assemblages from the Middle Eocene indurated limestones and marls collected in the External Dinarides extracted with acetic acid of different concentrations (50%, 60%, 70% and 80%) and different reaction (exposure) times. The deposits originated within the Dinaric foreland basin, have been assigned to the so-called Transitional beds and Flysch, and are characterized by different ratio of carbonate content and degree of lithification. The aim of this paper is to compare the efficiency of the laboratory procedures for obtaining isolated specimens and to evaluate the impact of preparation procedure on the quality of tests (complete test vs. secondary dissolution effects). For each acetic concentration we assessed: (1) the effectiveness of the treatment in terms of the time required for successful extraction of planktonic foraminifera, and (2) the degree of dissolution by analyses of dissolution proxies, including the weight percentage of sieved residues after disaggregation and preservation features of the tests. Our results indicate that accurate taxonomic analysis of carbonate rocks requires the use of 60% acetic acid for a shorter reaction time, and hydrogen peroxide methods for marls.