dual projector stereo projection is one of our specialties. You need two very good circular (or linear) polarising filters which are of very high transmittance and do not degrade. You also need something like stereoscopic player to output your stereo in whichever format is required (side-by-side, line interlaced, dual stream) out of a pc with a decent graphics card such as the quadro range. a good dual projection mount with adjustment for 3 axis is useful and a high quality silver screen also.. our silver screens aren't as expensive as you might think.
http://www.speed3d.co.uk