This dataset provides geochemical composition data for the Lateglacial sediment sequence retrieved from Lake Hämelsee (Germany) in 2013, determined using an Itrax X-ray fluorescence (XRF) core scanner. Selected geochemical major and minor elements (Ti, Si, Ca, Fe) expressed as counts per second, as elemental ratios, as centered log-ratios (CLR) and as log-ratios are presented against both depth (m) and age (cal yr. BP). The XRF data was used to provide information on LGIT landscape dynamics at lake Hämelsee. The geochemical composition of the sediments was determined on fresh core splits using an Itrax X-ray fluorescence (XRF) core scanner equipped with a Cr tube. Measurements were performed at 200 µm resolution during 20s exposure time per step at 30 kV tube voltage and 40 mA tube current. The analyses were performed in the laboratories of GFZ, Potsdam.