Sustainable agriculture aims to use biological resources to improve crop quality and productivity. This approach promotes alternatives, such as replacing synthetic pesticides with biological ones and substituting mineral fertilizers with organic fertilizers. Field trials were conducted using two different factors: fertilizer treatments (ammonium nitrate and pig manure digestate) and plant protection treatments (pesticides, Artemisia dubia Wall biomass mulch, and strips). After harvesting the winter wheat, the productivity and quality (weight of 1000 grains, protein, gluten, starch, sedimentation of grains) were evaluated. The two-year studies showed that pig manure digestate positively affected winter wheat grain quality. Mugwort biomass outperformed other plant protection options in three key grain quality indicators (protein, gluten, and sedimentation). Furthermore, in 2023, the highest grain yield of 5798 ± 125 kg ha−1 was observed in the pesticides and pig manure digestate treatment. The quick impact and mode of action of vegetation pesticides were more easily felt over the two years of study, leading to the highest yield of wheat grains compared to other plant management measures. This study shows that mugwort biomass can positively influence wheat grain quality, a significant milestone in utilizing nonfood crops as alternatives for agricultural productivity.