Go to nexus6's yellow hallway (just before one of the stairs to alien base) and shoot a lot of graphic intensive weapons (pulse rifle, lucy, flamer). The fps might be lower when using your binary than when using normal binary. As far as I remember, this should reproduce the problem.
Also try asking ExistentialRisk if you see him. The FPS issues he had caused him to change back to the original binary. (I'm not sure it had any real effect for me, since I didn't do a very objective test. In hindsight I should've done more testing before posting. Sorry about that.)