My solution has been to bind the Stereo Toggle and the game's Scope to the same key (In my case, Shift works well). So, stereo is switched off while aiming through the scope and is switched back on when I put the scope down.
(By the way, the Bullet-Cam view in Sniper Elite is awesome in Stereo
![Twisted Evil :twisted:](./images/smilies/icon_twisted.gif)