Thanks for suggestions everyone.
Old coprs, yes the timing is correct and 3D effect is there, but it's really lame compared to other 3D output devices. Hard to explain but like said, it's just not that impressive at all like it's on other devices, even small TV screens. For instance in Gravity 3D where pieces fly towards viewer I feel a need to dodge when watched in 3D theater or even using my 55" Sony. With Epson it's just... well really poor.
falafala, yea I've experienced with 3D brightness with different films but doesn't seem to make any difference to the depth effect. Only helps to fade away that crosstalk. Crosstalk is really noticeable, even with lowest brightness. Maybe that's the reason for poor effect as, if I adjust "depth" (separation) with my sony, I get really bad crosstalk on Sony too and 3D effect suffers heavily. Would be nice to have such setting on this projector too.
ashyt16, yes my settings should be correct and like said, same film with same source with different output device looks like it should. I have 2 HDMI outputs from my Yamaha, other one going to my Sony TV.
I've done these tests with all those source materials you mentioned (bluray discs, PS3 games, SBS and half-SBS). On HTPC I've used PowerDVD 13 and MPC-HC.