For some reason, with reshade 3.0.4 and beyond, it does not hook properly into S.T.A.L.K.E.R. Shadow of Chernobyl. Reshade 3.0.4 causes the game to crash, and the latest release (3.4.0) lets the game load without issue, but reshade does not load. I have tried disabling all mods in case those were causing the issue.
Here are the d3d9.logs for each version (plus the crash data from STALKER for 3.0.4)