In a method and magnetic resonance (MR) apparatus to acquire MR data from a subject, a predetermined spectral model of a multipoint Dixon technique is used that includes at least two spectral components with respective associated relaxation rates, a first phase due to field inhomogeneities; and a second phase due to eddy current effects. MR data are acquired using a bipolar multi-echo MR measurement sequence for multiple image points wherein, for each image point, the multi-echo MR measurement sequence alternately uses positive and negative readout gradient fields for the readout of MR signals of the MR data at at least three echo times. The at least two spectral components are determined based on the MR data.