The introduction and spread of Sacramento Pikeminnow (Ptychocheilus grandis) in northern California's Eel River basin represents a significant threat and impediment to the recovery of several threatened native fish species. This study was undertaken to evaluate the Trojan Y chromosome (TYC) strategy for the extirpation of pikeminnow from the basin. The TYC strategy is a biocontrol method that relies on the production and stocking of fish with YY sex chromosomes, which may be phenotypically male (YY male or Myy) or female (YY female or Fyy). These YY fish produce all-male offspring when mating with their wild conspecifics, potentially leading to the extirpation of wild-type females over time. To evaluate the strategy, we constructed a mechanistic, individual-based population model to simulate a TYC Sacramento Pikeminnow stocking program. The specific study objectives were to (1) estimate the amount and time scale of YY Sacramento Pikeminnow stocking needed to achieve elimination; (2) evaluate how a TYC program would be affected by the rate of manual pikeminnow suppression, the relative survival of YY pikeminnow, and the phenotype of stocked YY fish (i.e., Fyy or Myy); (3) evaluate the mathematical feasibility of a TYC program for population reduction in an open system where elimination would not be possible due to influx from outside sources (e.g., a river tributary); and (4) identify key biological uncertainties for future investigation.