A method and apparatus are provided for managing dependencies between split command and data transactions. A command transaction is written into a command array. A data transaction is written into a data array. A marker is defined for both command transactions and data transactions, and a marked command counter is maintained. Marked data will not be sent unless the older commands have been sent. A data header is marked if the previous transaction written was a command, and a command is marked if the previous transaction written was data. The marked command counter maintains a count of marked commands sent relative to sending marked data.