<p>The Apurinic/Apyrimidinic endonuclease 1 (APE1/Ref-1) is essential for controlling the oxidative DNA base damage via the Base Excision Repair (BER) pathway. While APE1’s N-terminal region is important in redox function (named redox effector factor 1, Ref-1) and protein-protein interactions, its C-terminal region is involved in DNA repair activities. In this work, we employed the Aβ_25–35 peptide to produce oxidative stress in order to assess the protective effects of two phytochemicals, ferulic acid (FA) and Ginkgolide B (GB), individually and in combination, with a focus on APE1 in different subcellular compartments of human neuroblastoma SH-SY5Y cells. Exposure to Aβ_25–35 reduced the APE1 levels in the mitochondrial, nuclear, whole-cell, and exosomal extracts, resulting in oxidative DNA base damage, which resulted in the accumulation of DNA base lesions, further compromising neuronal homeostasis. Moreover, Aβ_25–35 suppressed the activation of important transcription factors, including Nrf-2 and CREB, necessary for neuroprotection, synaptic plasticity, and antioxidant defense, by inhibiting APE1’s redox activity. Neurodegenerative processes and elevated oxidative stress were exacerbated by the absence of these defensive mechanisms. On the other hand, pre-treatment with the phytochemicals FA and GB, both individually and synergistically, successfully restored APE1 expression and functionality in different subcellular compartments. In addition to improving BER efficiency by lowering oxidative DNA damage, this also restored APE1’s redox activity, which made it easier for Nrf-2 and CREB to activate. By modifying APE1-dependent repair and redox pathways, these factors reduced Aβ-induced oxidative stress and neuronal damage, indicating their potential as therapeutic agents in Alzheimer’s disease (AD).</p>