Bee Removal Average Costs. 1  A basic bee removal job starts at $75 to $150; more complex jobs can cost $200 to $800 or as much as $1,000 to $2,000+. 2  Additional repair and reconstruction costs may apply. 3  Factors that affect the cost of bee removal include the size and location of the hive, the type of bee, and the accessibility of the hive. A beekeeper might remove an easy-to-access honeybee hive for free, but more difficult jobs often require a fee.