The ban on the use of zinc oxide has increased interest in probiotics, prebiotics, synbiotics and organic acids, as well as fermented components in the diet of weaned piglets. This study assessed the effect of 8% fermented rapeseed meal in weaner diets on characteristics of the gastrointestinal tract, the small intestinal microbiota, and immune and antioxidant status. The effects were determined by measuring biochemical and haematological blood parameters, levels of class G, A and M immunoglobulins and IL‑6, and the antioxidant potential of the plasma. After slaughter, the gastrointestinal tract was measured, the viscosity of the digesta was determined, and microbiological tests were performed. The results showed that the fermented component reduced the viscosity of the digesta and the length of segments of the gastrointestinal tract. It caused a statistically significant increase in lactic acid bacteria and a decrease in total bacteria. The haematological and biochemical analyses of the blood confirmed the biological activity of the fermented component. Pigs from group FR had significantly higher haemoglobin levels (p = 0.001), RBC count (p = 0.015), and haematocrit (Ht) value (p < 0.001) than the control animals. A diet including 8% rapeseed meal fermented using Bacillus subtilis strain 87Y benefits gastrointestinal function by stabilizing and improving the function of the bacterial microbiota, inhibiting growth of certain pathogens, and strengthening immunity.