1. A method performed by an embedded port of a host bus adapter of a storage controller, the method comprising: receiving, from a driver of the host bus adapter, a first set of commands to quiesce I/O operations in the embedded port for a first period, wherein hardware resets of buses and other logic to which the embedded port is connected are performed in the first period of quiescing of I/O operations; receiving one or more commands to resume selected I/O operations in the embedded port; receiving a second set of commands to quiesce I/O operations for a second period; and receiving a command to allow normal I/O operations, subsequent to the driver being reinitialized during the second period of quiescing of I/O operations.