More than one in ten (12 percent) of Brits are unable to see content broadcast in 3D properly, says The Eyecare Trust.
Research by the sight charity reveals that sufferers of 'poor binocular vision' are "unable to correctly process the individual images" required for 3D.
As a result the brain tries to compensate, which can lead to headaches or discomfort when viewing.
However, the charity says binocular vision problems can be easily detected during during a sight test and treatment can be as simple as wearing glasses.
The news comes as games developer Ubisoft revealed it expects 3DTV to be in all UK homes by 2013.
"It'll start slowly this year, but like high definition television, I wouldn't rule out the fact that this will be installed in everyone's living room in three years' time," Murray Pannel, head of marketing for Ubisoft in the UK, said.
Ubisoft believes by 2012, half of all computer games will be played in 3D as they offer a "more immersive" experience.
See also: The truth about 3D: Is it really ready?