SD card on pins 39-42 on the esp32-s3 (wroom 1u)

Hi, I am trying to use a micro SD card in SPI mode on pins 39-42.
I am not getting the card mounted, and I don't know what the issue is, so i though, maybe someone here can help me :).

If you need the full schematic, please tell me, because it is pretty big :).

In the datasheet of the esp32 s3 wroom 1u, the pins 39-42 are labelled as JTAG pins, I think I am currently using the built-in JTAG to get the serial output (or not, maybe I am not understanding this correctly). But does this mean that I can't use these pins for the SD card, or is this still supposed to work?
Any help is appreciated!

I have connected the pins like this:
39 - CS
40 - SCK
41 - MOSI (SD DI)
42 - MISO (SD DO)

I have changed the SD_test example like this:

This is my Arduino IDE configuration:

what specific ESP32S3 are you using? give a link?
can you post your code?
when I used a ESP32S3 HSPI for an SD card I used pins

// define HSPI pins
#define HSPI_SCK 4
#define HSPI_MISO 16
#define HSPI_MOSI 17
#define SD_CS 15

SPIClass *hspi = NULL;  // SPI object

void setup() {
  Serial.begin(115200);
  delay(2000);
  // setup SD card reader
  hspi = new SPIClass(HSPI);                           // create SPI class
  hspi->begin(HSPI_SCK, HSPI_MISO, HSPI_MOSI, SD_CS);  // setup SPI pins
  if (!SD.begin(SD_CS, *hspi)) {                       // mount card
    Serial.println("Card Mount Failed");
    return;
  }

serial monitor displayed

SD Card Type: SDHC
SD Card Size: 14992MB
Listing directory: /
  DIR : System Volume Information
  FILE: test.txt  SIZE: 1048576
  FILE: data.txt  SIZE: 891
Total space: 14984MB
Used space: 2MB
open MRFC522 RFID readerFirmware Version: 0x92 = v2.0
dDeleting file: /data.txt
File deleted

looking at ESP32-S3 Pin Reference pins 39 to 42 should work

Oh, I am sorry for not specifying, I have designed a custom PCB with the esp32 s3 wroom 1u chip.
I will try hspi

My code was the unchanged (except for pins) "SD_test" file from the SD library btw

just ran the following code on a ESP32-S3-DevKitC-1 using HSPI with your pin configuration

// ESP32-S3 SD card test modified to use HSPI
// see https://forum.arduino.cc/t/esp32-initialize-hspi-as-default-spi/1155093/12

/*
  Rui Santos
  Complete project details at https://RandomNerdTutorials.com/esp32-microsd-card-arduino/
  
  This sketch can be found at: Examples > SD(esp32) > SD_Test
*/

// define HSPI pins
#define HSPI_SCK 40
#define HSPI_MISO 42
#define HSPI_MOSI 41
#define SD_CS 39

#include "FS.h"
#include "SD.h"
#include "SPI.h"

SPIClass *hspi = NULL;  // SPI object

void listDir(fs::FS &fs, const char *dirname, uint8_t levels) {
  Serial.printf("Listing directory: %s\n", dirname);

  File root = fs.open(dirname);
  if (!root) {
    Serial.println("Failed to open directory");
    return;
  }
  if (!root.isDirectory()) {
    Serial.println("Not a directory");
    return;
  }

  File file = root.openNextFile();
  while (file) {
    if (file.isDirectory()) {
      Serial.print("  DIR : ");
      Serial.println(file.name());
      if (levels) {
        listDir(fs, file.name(), levels - 1);
      }
    } else {
      Serial.print("  FILE: ");
      Serial.print(file.name());
      Serial.print("  SIZE: ");
      Serial.println(file.size());
    }
    file = root.openNextFile();
  }
}

void createDir(fs::FS &fs, const char *path) {
  Serial.printf("Creating Dir: %s\n", path);
  if (fs.mkdir(path)) {
    Serial.println("Dir created");
  } else {
    Serial.println("mkdir failed");
  }
}

void removeDir(fs::FS &fs, const char *path) {
  Serial.printf("Removing Dir: %s\n", path);
  if (fs.rmdir(path)) {
    Serial.println("Dir removed");
  } else {
    Serial.println("rmdir failed");
  }
}

void readFile(fs::FS &fs, const char *path) {
  Serial.printf("Reading file: %s\n", path);

  File file = fs.open(path);
  if (!file) {
    Serial.println("Failed to open file for reading");
    return;
  }

  Serial.print("Read from file: ");
  while (file.available()) {
    Serial.write(file.read());
  }
  file.close();
}

void writeFile(fs::FS &fs, const char *path, const char *message) {
  Serial.printf("Writing file: %s\n", path);

  File file = fs.open(path, FILE_WRITE);
  if (!file) {
    Serial.println("Failed to open file for writing");
    return;
  }
  if (file.print(message)) {
    Serial.println("File written");
  } else {
    Serial.println("Write failed");
  }
  file.close();
}

void appendFile(fs::FS &fs, const char *path, const char *message) {
  Serial.printf("Appending to file: %s\n", path);

  File file = fs.open(path, FILE_APPEND);
  if (!file) {
    Serial.println("Failed to open file for appending");
    return;
  }
  if (file.print(message)) {
    Serial.println("Message appended");
  } else {
    Serial.println("Append failed");
  }
  file.close();
}

void renameFile(fs::FS &fs, const char *path1, const char *path2) {
  Serial.printf("Renaming file %s to %s\n", path1, path2);
  if (fs.rename(path1, path2)) {
    Serial.println("File renamed");
  } else {
    Serial.println("Rename failed");
  }
}

void deleteFile(fs::FS &fs, const char *path) {
  Serial.printf("Deleting file: %s\n", path);
  if (fs.remove(path)) {
    Serial.println("File deleted");
  } else {
    Serial.println("Delete failed");
  }
}

void testFileIO(fs::FS &fs, const char *path) {
  File file = fs.open(path);
  static uint8_t buf[512];
  size_t len = 0;
  uint32_t start = millis();
  uint32_t end = start;
  if (file) {
    len = file.size();
    size_t flen = len;
    start = millis();
    while (len) {
      size_t toRead = len;
      if (toRead > 512) {
        toRead = 512;
      }
      file.read(buf, toRead);
      len -= toRead;
    }
    end = millis() - start;
    Serial.printf("%u bytes read for %u ms\n", flen, end);
    file.close();
  } else {
    Serial.println("Failed to open file for reading");
  }


  file = fs.open(path, FILE_WRITE);
  if (!file) {
    Serial.println("Failed to open file for writing");
    return;
  }

  size_t i;
  start = millis();
  for (i = 0; i < 2048; i++) {
    file.write(buf, 512);
  }
  end = millis() - start;
  Serial.printf("%u bytes written for %u ms\n", 2048 * 512, end);
  file.close();
}

void setup() {
  Serial.begin(115200);
  hspi = new SPIClass(HSPI);  // create SPI class

  hspi->begin(HSPI_SCK, HSPI_MISO, HSPI_MOSI, SD_CS); // setup SPI pins
  if (!SD.begin(SD_CS, *hspi)) {                      // mount card
    Serial.println("Card Mount Failed");
    return;
  }
  uint8_t cardType = SD.cardType();

  if (cardType == CARD_NONE) {
    Serial.println("No SD card attached");
    return;
  }

  Serial.print("SD Card Type: ");
  if (cardType == CARD_MMC) {
    Serial.println("MMC");
  } else if (cardType == CARD_SD) {
    Serial.println("SDSC");
  } else if (cardType == CARD_SDHC) {
    Serial.println("SDHC");
  } else {
    Serial.println("UNKNOWN");
  }

  uint64_t cardSize = SD.cardSize() / (1024 * 1024);
  Serial.printf("SD Card Size: %lluMB\n", cardSize);

  listDir(SD, "/", 0);
  createDir(SD, "/mydir");
  listDir(SD, "/", 0);
  removeDir(SD, "/mydir");
  listDir(SD, "/", 2);
  writeFile(SD, "/hello.txt", "Hello ");
  appendFile(SD, "/hello.txt", "World!\n");
  readFile(SD, "/hello.txt");
  deleteFile(SD, "/foo.txt");
  renameFile(SD, "/hello.txt", "/foo.txt");
  readFile(SD, "/foo.txt");
  testFileIO(SD, "/test.txt");
  Serial.printf("Total space: %lluMB\n", SD.totalBytes() / (1024 * 1024));
  Serial.printf("Used space: %lluMB\n", SD.usedBytes() / (1024 * 1024));
}

void loop() {
}

serial monitor displays

SD Card Type: SDSC
SD Card Size: 121MB
Listing directory: /
  DIR : System Volume Information
  FILE: data.txt  SIZE: 486
  FILE: test.txt  SIZE: 77824
  FILE: foo.txt  SIZE: 13
Creating Dir: /mydir
Dir created
Listing directory: /
  DIR : System Volume Information
  FILE: data.txt  SIZE: 486
  FILE: test.txt  SIZE: 77824
  FILE: foo.txt  SIZE: 13
  DIR : mydir
Removing Dir: /mydir
Dir removed
Listing directory: /
  DIR : System Volume Information
Listing directory: System Volume Information
Failed to open directory
  FILE: data.txt  SIZE: 486
  FILE: test.txt  SIZE: 77824
  FILE: foo.txt  SIZE: 13
Writing file: /hello.txt
File written
Appending to file: /hello.txt
Message appended
Reading file: /hello.txt
Read from file: Hello World!
Deleting file: /foo.txt
File deleted
Renaming file /hello.txt to /foo.txt
File renamed
Reading file: /foo.txt
Read from file: Hello World!
77824 bytes read for 191 ms
1048576 bytes written for 267 ms
Total space: 120MB
Used space: 0MB

Apparently there were issues with both my soldering and my SD card, I reflowed the holder and tried another card and it mounts!
Thanks for your help!