The Intel® Quartus® Prime Programmer option "Unprotect EPCS/EPCQ devices selected for the erase/program operation" is valid for Micron MT25Q and Macronix MX25 and MX66U series flash devices.
For Cypress S25FL flash devices, the Intel Quartus Prime programmer will always remove the block protection bits.
For other third party flash devices, refer to the Generic Flash Programmer to customize the programming flow to remove the block protection bits.
Genetic Flash Programmer User Guide: Intel Quartus Prime Standard Edition
Genetic Flash Programmer User Guide: Intel Quartus Prime Pro Edition