Linking two network flows that have the same source is essential in intrusion detection or in tracing anonymous connections. To improve the performance of this process, the flow can be modified (fingerprinted) to make it more distinguishable. However, an adversary located in the middle can modify the flow to impair the correlation by delaying the packets or introducing dummy traffic. We introduce a game-theoretic framework for this problem, that is used to derive the Nash Equilibrium. As obtaining the optimal adversary delays distribution is intractable, some approximations are done. We study the concrete example where these delays follow a truncated Gaussian distribution. We also compare the optimal strategies with other fingerprinting schemes. The results are useful for understanding the limits of flow correlation based on packet timings under an active attacker.