A method and apparatus for managing a communication system including multiple links is presented. A receiver including a First-In, First-out (FIFO) memory receives information communicated on the links. A FIFO is associated with each communication link. Information is written into the FIFO based on a transmitter clock. Information is read out of the FIFO using a receiver clock. The FIFO is used to deskew data communicated across the communication links and re-synchronize the data between the transmitter clock and the receiver clock. A state machine controls the information read out of the FIFO. The state machine includes a deskew enabled state, a deskew disabled state and a reset state. Using the FIFO, the system is able to self reset and transition between the deskew enabled state and the deskew disabled state.