After removing the SDA I2C pull-up resistor I can program the ESP32 with ESP-Prog, so that's good news!
FYI, i did test and try to flash it ,
1. When i connect ESP32-S3 Pin-15 to SDA I2C pull-resistor as you described ? i tested one of my 1-chip Bitaxe_V2 board and it has the same behaviour as before where i could not flash it.
2. When i disconnected the airwire from R19 over to pin 15 on the ESP32 (pink line). i was able to flash the ESP32-S3 without actually pressing the reset button. i know that ESP32-S3 with ESP-PROG it can automatically pull-down when flashing , so you don't have to press the boot and reset buttons manually.
is this a strange behaviour ?