Abstract The Focused Microwave (FMW) assisted extraction for organic contaminant analysis, such as polycyclic aromatic hydrocarbons (PAHs), in environmental matrices, was studied and optimized using a factorial design. The effects and interactions of five parameters on the extraction recovery were investigated in a few experiments with a good accuracy: irradiation power and time, volume and nature of solvent, and percentage of moisture of the matrix. The results show that the percentage of water added to the freeze-dried matrix can significantly increase the extraction recovery. The irradiation power has also a positive effect. The choice of solvent is significant: a mixture of heptane/ethanol (80/20, v/v) allows better results than dichloromethane. Some interactions between percentage of moisture and the two previous parameters have been demonstrated: the effect of power and nature of solvent depends on the water content. Some optimal conditions have been established: 10 mL of heptane/ethanol (80/20, v/v), extraction time of 2 min, and different possible pairs of moisture content and irradiation power (140 W and 0% of moisture or 20 W and 40% of moisture) according to the need and wish of the experimentalist; or 10 mL of dichloromethane, extraction time of 2 min, 20 W and 40% of moisture. These optimized conditions provide very good recoveries compared to conventional extraction such as Soxhlet (near 100%) for the model matrix (a marine sediment) used for the factorial design. FMW extraction is a good alternative to Soxhlet extraction with reduction of time and reduction of solvent volume. This study shows that it is possible to substitute chlorinated solvent by a less toxic solvent, like a mixture of heptane and ethanol.