Quantitative acoustic marine habitat mapping needs to consider the impact ofmacrobenthic organisms on backscatter data. However, the sensitivity of hydroacoustic systems toepibenthic life is poorly constrained. This study explores the impact of a benthic community withsparse abundance on seafloor microroughness and acoustic backscatter at a sandy seafloor in theGerman North Sea. A multibeam echo sounder survey was ground-truthed by landermeasurements combining a laser line scanner with sub-mm resolution and broad-band acoustictransducers. Biotic and abiotic features and spatial roughness parameters were determined by thelaser line scanner. At the same locations, acoustic backscatter was measured and compared with anacoustic scatter model utilizing the small-roughness perturbation approximation. Results of thelander experiments show that a coverage with epibenthic features of 1.6% increases seafloorroughness at spatial wavelengths between 0.005–0.03 m, increasing both spectral slope andintercept. Despite the fact that a strong impact on backscatter was predicted by the acoustic modelbased on measured roughness parameters, only a minor (1.1 dB) change of backscatter was actuallyobserved during both the lander experiments and the ship-based acoustic survey. The results of thisstudy indicate that benthic coverage of less than 1.6% is insufficient to be detected by currentacoustic remote sensing.