If you drive nSTATUS or CONF_DONE low after configuration and initialization are complete for a FLEX® device, there will be no impact on the device operation.
However, if the process is between configuration and initialization and
nSTATUS driven low, the device will not enter user mode. Driving
CONF_DONE low will have no adverse affects, it will just delay the initialization process. If you are using a configuration device to configure the FLEX device and
CONF_DONE is driven low, you may drive
nSTATUS low to restart the configuration process.