You would probably have to run a debug, an dlook at the Disk Agetn debugs to gete an idea of what might be causing this
If I know what the error was, and how long it was taking to timeout, I might be able to suggest a 'global' parameter to change, but, on the face of it, it might be one, or both, of these:
# SmSendReceiveTimeout=TimeoutInSeconds
# default: 1800
# This timeout is used when sending data from Agent to Session
# Manager (BSM, RSM, etc.) or receiving data by Agent from
# Session Manager. If operation can not be completed within
# timeout value, error is issued and connection closed.
# SmSendReceiveMonitorTimeout=TimeoutInSeconds
# default: 120
# This timeout is used when sending data from Monitor to Session
# Manager (BSM, RSM, etc.) or receiving data by Monitor from
# Session Manager. If operation can not be completed within
# timeout value, error is issued and connection closed.