Question

If you have a rectangular loop of area A placed in a region where the magnetic field is perpendicular to the plane of the loop, than would the emf be zero because they are perpendicular?

Answer 1

First the field through the loop must be changing with time to generate voltage around the loop.
If the B field vector lies in the plane of the loop, there is no flux through the loop. However if the field is changing or equivalently the loop is rotating, there is a rate of change of magnetic field flux through the loop and an emf appears.