Identix BioLogon 2.03 and earlier does not lock secondary displays on a multi-monitor system running Windows 98 or ME, which allows an attacker with physical access to the system to bypass authentication through a secondary display.

Identix BioLogon 3 allows users with physical access to the system to gain administrative privileges by using CTRL-ALT-DEL and running a "Browse" function, which runs Explorer with SYSTEM privileges.