1. A workflow information capture system, comprising: a worksheet having a plurality of input fields and position-identifying data printed thereon; a digital pen comprising an image-capturing sensor, wherein the digital pen includes program instructions that instruct the pen to: capture a plurality of handwritten markings that are present on the worksheet, and detect, via the image capturing sensor, at least a portion of the position-identifying data, wherein at least some of the captured position-identifying data corresponds to a location of one of the handwritten markings on the substrate; and a computing device having a processor and a memory, wherein the memory has instructions that instruct the processor to: receive the handwritten markings and the captured position-identifying data from the digital pen, identify, based on the position-identifying data, a set of process parameters, identify, for each of the markings based on the position-identifying data, an input position, for each input position, determine which of the process parameters correspond to the input position, and for each handwritten marking, save the handwritten marking and its corresponding process parameter in the memory.