In this study, livestock manure digestate (LMD) was used as feedstock for hydrothermal carbonization (HTC) at different temperature (180–260 °C) and residence time (0–4 h). Nutrient flow and distribution during the HTC process were evaluated by comparing the effects of livestock manure biogas slurry (LBS) and ultrapure water (UW) to determine the optimal reaction conditions for the synergistic production and application of hydrochars (HC) and aqueous phases (AP). Compared with UW, the HC yields derived from LBS as solvent were increased by 27.05–38.24% under the same conditions. The C content, high heating value (HHV), and energy densification of HC obtained from LMD and UW were higher than those obtained from LMD and LBS, and the ash content was lower. While, LBS circumstance improved the porosity, N content and some trace elements e.g. Ca, Fe and Mg in HC that showed excellent fertility potential. In addition, the recovery rate of K, TOC, NH4+-N, and TN concentrations in AP were significantly higher in the LBS circumstance than in UW. The results show that the addition of UW is more favorable for fuel generation, and the HC obtained from LMD and UW at 220 °C has the potential to be used as a fuel. Whereas, the addition of LBS enhanced the potential of HC and AP for agricultural applications simultaneously. It is recommended to use HC and AP obtained from LMD and LBS at 240 °C for using as fertilizer.