We study D3-branes at orbifolded conifold singularities in the presence of
discrete torsion. The vacuum moduli space of open strings becomes non commu
tative due to a deformation of the superpotential and is studied via the re
presentation theory of the moduli algebra. It is also shown that the center
of the moduli algebra correctly describes the underlying orbifolded conifo
lds. The field theory can be obtained by a marginal deformation of the N =
1 gauge theory on D3-branes at conifold singularity, the global symmetry be
ing broken from SU(2) X SU(2) to U(1) X U(1). By using the AdS/CFT correspo
ndence we argue that the marginal deformation is related to massless KK mod
es of NSNS and RR two form reduced on the compact space T-1,T-1. We build a
T-2 fibration of T-1,T-1 and show that a D3-brane in the bulk correspond t
o a D5-brane on the T-2 fibre. We also discuss the possible brane construct
ion of the system.