A model-independent measurement of the differential production cross section of the Higgs boson decaying into a pair of W bosons, with a final state including two jets produced in association, is presented. In the analysis, events are selected in which the decay products of the two W bosons consist of an electron, a muon, and missing transverse momentum. The model independence of the measurement is maximized by employing a discriminating variable, developed through machine learning, that is agnostic to the signal hypothesis. The analysis is based on proton-proton collision data at s=13 TeV collected with the CMS detector from 2016–2018, corresponding to an integrated luminosity of 138 fb−1. The production cross section is measured as a function of the difference in azimuthal angle between the two jets. The differential cross section measurements are used to constrain Higgs boson couplings within the standard model effective field theory framework.