In order to use the native USB for programming on pins PA11 and PA12, the following settings must be done in STM32CubeProgrammer –> Option bytes –> User Configuration.

Option byte name	Value	Description	Notes
NBOOT_SEL	0 (Unchecked)	BOOT0 pin (legacy mode)	Factory setting is 1. You must change it to 0 to keep USB DFU programming capability.
nBOOT1	1 (Checked)	Boot from Flash if BOOT0 = 1, otherwise System Memory	This is the factory setting
NRST_MODE	1 or 3	1: Reset input only 3. Bidirectional reset: The NRST pin is configured in reset input/output (legacy) mode	3 is the factory setting