This work describes research focused on the recovery of ellagic acid (EA) using solid-state fermentation-assisted extraction (SSF) with Aspergillus niger GH1 and Mexican rambutan peel as support. Several culture conditions (temperature, initial moisture, levels of inoculum, and concentration of salts) were evaluated using a Placket–Burman design (PBD) for screening culture factors followed by a central composite design (CCD) for enhancing the EA. Antioxidant activity and polyphenol content were evaluated in SSF. Temperature (28.2 °C), inoculum (2 × 107 spores/g), and NaNO3 (3.83 g/L) concentration were identified as a significant parameter for EA in SSF. This enhancing procedure resulted in an increase in EA recovery [201.53 ± 0.58–392.23 ± 17.53 mg/g] and, with two steps of purification, [396.9 ± 65.2 mg/g] of EA compound was recovered per gram of recovered powder. Fermentation extracts reflect inhibition of radicals and the presence of polyphenol content. This work proposes to identify the ideal conditions of fermentation in order to obtain a higher yield high-quality compound from agro-industrial wastes through SSF.