When applied before crop emergence, soil amendments with mustard seed meal (MSM) control some weeds and soilborne pathogens. MSM applications after crop emergence (herein “postemergence applications”) might be useful components of agricultural pest management programs, but research on postemergence applications of MSM is limited. The overall objective of this investigation was to develop a method for postemergence application of MSM that does not cause irrecoverable injury or yield loss in chile pepper (Capsicum annuum). To accomplish this objective, we conducted a sequence of studies that evaluated different MSM rates and application methods in the greenhouse and field. For the greenhouse study, we measured chile plant photosynthetic and growth responses to MSM applied postemergence on the soil surface or incorporated into soil. For the field study, we determined chile pepper fruit yield responses to MSM applied postemergence using a technique based on the method developed in greenhouse, and we confirmed that the MSM rates used in our study (4400 kg·ha−1 and 2200 kg·ha−1) inhibited the emergence of the weed Palmer amaranth (Amaranthus palmeri) and the growth of the pathogen Phytophthora capsici, which are common problems in chile pepper production in New Mexico. Greenhouse study results indicated that MSM at 4400 kg·ha−1 spread on the soil surface caused irrecoverable injury to chile pepper plants; however, chile pepper plants were not permanently injured by the following three treatments: 1) MSM at 4400 kg·ha−1 incorporated into soil, 2) MSM at 2200 kg·ha−1 spread on the soil surface, and 3) MSM at 2200 kg·ha−1 incorporated into soil. For the field study, postemergence, soil-incorporated applications of MSM at 4400 kg·ha−1 suppressed emergence of Palmer amaranth by 89% and reduced mycelial growth of Phytophthora capsica by 96%. Soil-incorporated applications of MSM at 2200 kg·ha−1 suppressed emergence of Palmer amaranth by 41.5% and reduced mycelial growth of Phytophthora capsica by 71%. Postemergence soil-incorporated applications of MSM did not reduce chile pepper yield compared with the control. The results of this study indicated that MSM applied after crop emergence and incorporated into soil can be a component of pest management programs for chile pepper.