Techniques are presented for ensuring alignment marks are available for use and patterning magnetoresistive devices following the deposition of layers used to form the magnetoresistive devices. In some cases, the plurality of layers corresponding to the magnetoresistive devices are selectively etched in order to expose the underlying alignment marks, whereas in other embodiments, the deposition of the plurality of layers is controlled by deposition tool tabs that prevent the materials from obscuring the underlying alignment marks.