A computer system and method for managing commissions, including: a storage device containing a database having commission data and a periodic extract of sales transactions stored therein; a user interface for inputting the commission data into the database and viewing the commission data stored in the database; and a processor for calculating commissions for sales representatives and agents associated with a business enterprise based on the commission data, and forwarding the calculated commissions to a payroll department within the business enterprise; wherein the processor executes: a first software module for retrieving billing, inventory, corporate, and affiliated sales information for the sales representatives, and for calculating the commissions based on a predetermined rules set; and a second software module for retrieving billing and affiliated sales information for the agents, and for calculating the commissions based on the terms of a contract between the agent and the business enterprise.