Dairy cows are often exposed to multiple stressors in a lactation-cycle, with sub-acute ruminal acidosis (SARA) a frequent example of nutritional stress. SARA affects ruminal and intestinal equilibrium resulting in dysbiosis with localized and systemic inflammation impacting animal health and productivity. OmniGen-AF (OMN, Phibro Animal Health Corporation, Teaneck, NJ, USA) is a feed product recognized for modulating innate immune function, especially during periods of stress. The objective of this study was to determine the effects of OMN in lactating dairy cows fed a high-starch, low-fiber diet. Twenty-four blocked cows were assigned to control or treatment (55 g/d). After the additive adaptation (49 d) cows were fed the challenge diet (28 d). Milk, rumination and pH were continuously recorded; components, rumen fluid, and blood were taken in multiple time-point and analyzed. Results showed that the challenge decreased the rumination, shifted ruminal fluid composition, decreased milk production and the components, and slightly increased the time below pH 5.5, with no differences between groups. The treatment produced greater rumen butyrate and lower lactate, prompter regeneration of red blood cells, increase of neutrophils, lower paraoxonase, gamma-glutamyl-transferase, and β-hydroxybutyrate, with no differences on other tested inflammatory markers. Results show that OMN helps modulating some of the metabolic and immunological responses to SARA.