Reynolds number represents the the ratio of the inertia forces to the viscous forces in the flow.
So for high Reynolds numbers (e.g. Re >= 10^6) the viscous forces can be neglected.
For "creeping" or Stokes flow at very low Reynolds number (Re << 1) the inertia forces can be neglected.
Of course the Reynolds number depends on the viscosity (and other physical parameters), so in that sense the viscosity DOES influence the drag calculation - but only to the extent of deciding whether your [itex]\rho V^2 C_d A / 2[/itex] formula is relevant or not.
For some flow situations (e.g. in the transition between laminar and turbulent flow) [itex]C_d[/itex] is a function of Re, not a constant value.