The purpose of this study was to determine the effect of swallow manure and Synechococcus sp. bacteria on the morphophysiology of oil palm plants in Pre Nursery. The experiment used a factorial Randomized Block Design (RAK) and three replication. The first factor being swallow manure compost, W0 = 0 grams/plant, W1 = 100 grams/plant, W2 = 150 grams/plant, W3 = 200 grams/plant. The second factor was concentration of Synechococcus sp. Bacteria, S1 = concentration 10 ml/L, S2 = concentration 15 ml/L, S3 = concentration 20 ml/L. Parameters observed were plant height, stem diameter, the number of leaves, total chlorophyll, stomata density, stomatal opening width, and transpiration rate. Application of swallow manure compost had a significant effect on the parameters of plant height, number of leaves and total chlorophyll. Concentration of Synechococcus sp. gave a significant effect on the parameters of the transpiration rate while on morphology there was no significant effect on all parameters. The best dose of compost for plant height was 200 g of compost and 10 ml/L of bacterial concentration, while the treatment of 200 g of compost and 15 ml/L of bacterial concentration was the best dose of total chlorophyll and stomatal density parameters. Combination treatment of swallow manure compost and Synechococcus sp. gave a significant effect on the parameters of plant height, total chlorophyll and stomatal density. Keywords: Morphophysiology, Organic Fertilizer, Pre Nursery, Palm Oil, Synechococcus sp