Methods for aligning layers more accurately for FinFETs fabrication. An embodiment method includes forming a first pattern in a workpiece using a first photomask, forming a second pattern in the workpiece using a second photomask, the second photomask aligned to the first pattern, and aligning a third pattern to the first and the second patterns by aligning a first feature of the third pattern to a first feature of the first pattern in a first direction, and aligning a second feature of the third pattern to a first feature of the second pattern in a second direction orthogonal to the first direction.