5-hydroxymethylfurfural (HMF) stands out among the chemical products derived from biomass as a building block in the chemical industry. The conventional production of HMF is usually carried out from fructose, glucose, or other monosaccharides as feedstock, but sugar beet molasses, a by-product of the sugar industry containing sucrose (45–55%), is promising. This exploratory study used three aqueous stock solutions and one biphasic system as the sources of sucrose. The dehydration of sucrose to 5-hydroxymethylfurfural was assisted by microwave heating and subcritical water conditions. The maximum yield of HMF was 27.8 mol % for the aqueous solution of synthetic sucrose at 80 min of treatment. Although HMF yield was 7.1 mol % in the aqueous sugar beet molasses solution, it increased 2-fold after clarification (15.1 mol %) and 1.6-fold in the biphasic system (11.4 mol %). These are favorable outcomes since this is an exploratory investigation. The pseudo-first-order model fitted experimental data from the conversion of the sucrose from the stock solutions, and kinetic parameters were estimated and compared. The estimated reaction rate constant showed that inversion of sucrose is faster than fructose dehydration to HMF, but the latter reaction was the rate-determining step only for the biphasic system. The maximum partition coefficient value was four between 40 min and 60 min of reaction, calculated at room temperature. These predictions help investigators to estimate conversions and selectivity when pilot plants need to be simulated.