A novel soybean variety, designated XBP49006 is provided. Also provided are the seeds of soybean variety XBP49006, cells from soybean variety XBP49006, plants of soybean XBP49006, and plant parts of soybean variety XBP49006. Methods provided include producing a soybean plant by crossing soybean variety XBP49006 with another soybean plant, methods for introgressing a transgenic, mutant trait, and/or native trait into soybean variety XBP49006, methods for producing other soybean varieties or plant parts derived from soybean variety XBP49006. Soybean seed, cells, plants, germplasm, breeding lines, varieties, and plant parts produced by these methods and/or derived from soybean variety XBP49006 are further provided.