Systems and methods for repairing annulus defects include at least one blocking member positionable in or adjacent to the annulus defect, and at least one anchor for securing the blocking member to adjacent tissue recessed into the adjacent vertebrae. The blocking member extends at least partially across the annulus defect for repair of the defect and/or retention of nucleus material, one or more implants, bio-compatible materials or device, and/or other objects positioned in the disc space. Instruments are provided to facilitate preparation of the implantation site of the annulus repair system.