A computer-implemented method for user-directed malware remediation may include 1) identifying a window within a graphical user interface of a computing environment, 2) identifying a user-directed interface event directed at the window, 3) determining, based at least in part on the user-directed interface event, that a process represented by the window poses a security risk, and 4) performing a remediation action on the process based on determining that the process poses the security risk. Various other methods, systems, and computer-readable media are also disclosed.