Yields of sweet peppers depend on planting system and shoot pruning system. A research with the aim to optimize planting system and shoot pruning system in two sweet pepper varieties has been carried out in the Experimental Field of the Indonesian Vegetable Research Institute in Lembang (1,250 m asl.), West Java from May 2011 until February 2012. Three treatment factors consisted of planting system (one plant and two plants planted per polybag), shoot pruning system (pruning with two leaves and three leaves remaining per node) and variety (Inspiration and Spider) were laid-out using split plot design with three replication. The results indicated that planting system treatment significantly affected the yields of sweet pepper. Average total yields and yields of fruit >200 g from plants using one plant per polybag were 14.1% and 17.0% higher than those of plants using two plants per polybag. The shoot pruning treatment significantly affected only on the yields of fruit >200 g and the shoot pruning system with three leaves remaining per node gave significantly higher yields of fruit >200 g compared to the shoot pruning system with two leaves remaining per node. The total yields, yields of fruit >200 g and yields of fruit 100–200 g of Spider were significantly higher than those of Inspiration with the average total yields of Spider 12.3% higher than Inspiration. The results suggest that sweet pepper should be planted using one plant per polybag and the shoot pruning with three leaves remaining per node. If desired the relatively big size fruit, Inspiration is recommended, however, if desired the medium-size fruit, Spider is recommended.