A system for post-cure processing of a composite workpiece, the system comprising: a tool comprising a tool surface, wherein the tool surface supports the composite workpiece located on the tool, and the tool further comprises a sacrificial portion disposed on the tool surface; a drill template that defines a drilling location for drilling a hole through the composite workpiece while the composite workpiece is on the tool, wherein the drill template indexes the drilling location to the sacrificial portion; a scanner to digitize at least a portion the composite workpiece while the composite workpiece is on the tool; and a computing device adapted to generate a workpiece model representative of the composite workpiece, wherein: the workpiece model is representative of a contour of the composite workpiece as on the tool; the drill template is a virtual template; and the computing device is further adapted to: locate the virtual template relative to the workpiece model such that a virtual drill guide is indexed to the sacrificial portion of the tool; determine the drilling location relative to a reference frame based on the virtual drill guide; and instruct an automated drilling machine to drill the hole at the drilling location. a tool comprising a tool surface, wherein the tool surface supports the composite workpiece located on the tool, and the tool further comprises a sacrificial portion disposed on the tool surface; a drill template that defines a drilling location for drilling a hole through the composite workpiece while the composite workpiece is on the tool, wherein the drill template indexes the drilling location to the sacrificial portion; a scanner to digitize at least a portion the composite workpiece while the composite workpiece is on the tool; and a computing device adapted to generate a workpiece model representative of the composite workpiece, wherein: the workpiece model is representative of a contour of the composite workpiece as on the tool; the drill template is a virtual template; and the computing device is further adapted to: locate the virtual template relative to the workpiece model such that a virtual drill guide is indexed to the sacrificial portion of the tool; determine the drilling location relative to a reference frame based on the virtual drill guide; and instruct an automated drilling machine to drill the hole at the drilling location. the workpiece model is representative of a contour of the composite workpiece as on the tool; the drill template is a virtual template; and the computing device is further adapted to: locate the virtual template relative to the workpiece model such that a virtual drill guide is indexed to the sacrificial portion of the tool; determine the drilling location relative to a reference frame based on the virtual drill guide; and instruct an automated drilling machine to drill the hole at the drilling location. locate the virtual template relative to the workpiece model such that a virtual drill guide is indexed to the sacrificial portion of the tool; determine the drilling location relative to a reference frame based on the virtual drill guide; and instruct an automated drilling machine to drill the hole at the drilling location.