Cultivation of microalgae in waste digestate is a promising cost-effective and environmentally friendly strategy for algal biomass accumulation and valuable product production. Two different digestates obtained as by-products of the anaerobic fermentation at 35 °C and 55 °C of wheat straw as a renewable source for biogas production in laboratory-scale bioreactors were tested as cultivation media for microalgae after pretreatment with active carbon for clarification. The strains of microalgae involved were the red marine microalga Porphyridium cruentum, which reached 4.7 mg/mL dry matter when grown in thermophilic digestate and green freshwater microalga-Scenedesmus acutus, whose growth was the highest—7.3 mg/mL in the mesophilic digestate. During cultivation, algae reduced the available nutrient components in the liquid digestate at the expense of increasing their biomass. This biomass can find further applications in cosmetics, pharmacy, and feed. The nitrogen and phosphorus uptake from both digestates during algae cultivation was monitored and modeled. The results led to the idea of nonlinear dynamic approximations with an exponential character. The purpose was to develop relatively simple nonlinear dynamic models based on available experimental data, as knowing the mechanisms of the considered processes can permit creating protocols for industrial-scale algal production toward obtaining economically valuable products from microalgae grown in organic waste digestate.