The Wasserstein gradient flow structure of the partial differential equation system governing multiphase flows in porous media was recently highlighted in Cancès et al. [Anal. PDE10(8), 1845–1876]. The model can thus be approximated by means of the minimising movement (or JKO after Jordan, Kinderlehrer and Otto [SIAM J. Math. Anal.29(1), 1–17]) scheme that we solve thanks to the ALG2-JKO scheme proposed in Benamou et al. [ESAIM Proc. Surv.57, 1–17]. The numerical results are compared to a classical upstream mobility finite volume scheme, for which strong stability properties can be established.