I finally got the SD card working after all this time. It's nice and quiet now. But still got issues with it. I noticed then after I auto home it the nozzle never goes down to the Z stop. It even goes slightly higher. and after starting the print the nozzle just rams in to the bed.
Those is my end stop and movement settings.
Does anybody can see any problems related to that issue?

//================================================== =========================//============================== Endstop Settings ===========================
//================================================== =========================

// @section homing

// Specify here all the endstop connectors that are connected to any endstop or probe.
// Almost all printers will be using one per axis. Probes will use one or more of the
// extra connectors. Leave undefined any used for non-endstop and non-probe purposes.
#define USE_XMIN_PLUG
#define USE_YMIN_PLUG
#define USE_ZMIN_PLUG
//#define USE_XMAX_PLUG
//#define USE_YMAX_PLUG
//#define USE_ZMAX_PLUG

// Enable pullup for all endstops to prevent a floating state
#define ENDSTOPPULLUPS
#if DISABLED(ENDSTOPPULLUPS)
// Disable ENDSTOPPULLUPS to set pullups individually
//#define ENDSTOPPULLUP_XMAX
//#define ENDSTOPPULLUP_YMAX
//#define ENDSTOPPULLUP_ZMAX
#define ENDSTOPPULLUP_XMIN
#define ENDSTOPPULLUP_YMIN
#define ENDSTOPPULLUP_ZMIN
//#define ENDSTOPPULLUP_ZMIN_PROBE
#endif

// Enable pulldown for all endstops to prevent a floating state
//#define ENDSTOPPULLDOWNS
#if DISABLED(ENDSTOPPULLDOWNS)
// Disable ENDSTOPPULLDOWNS to set pulldowns individually
//#define ENDSTOPPULLDOWN_XMAX
//#define ENDSTOPPULLDOWN_YMAX
//#define ENDSTOPPULLDOWN_ZMAX
//#define ENDSTOPPULLDOWN_XMIN
//#define ENDSTOPPULLDOWN_YMIN
//#define ENDSTOPPULLDOWN_ZMIN
//#define ENDSTOPPULLDOWN_ZMIN_PROBE
#endif

// Mechanical endstop with COM to ground and NC to Signal uses "false" here (most common setup).
#define X_MIN_ENDSTOP_INVERTING false // Set to true to invert the logic of the endstop.
#define Y_MIN_ENDSTOP_INVERTING false // Set to true to invert the logic of the endstop.
#define Z_MIN_ENDSTOP_INVERTING false // Set to true to invert the logic of the endstop.
#define X_MAX_ENDSTOP_INVERTING false // Set to true to invert the logic of the endstop.
#define Y_MAX_ENDSTOP_INVERTING false // Set to true to invert the logic of the endstop.
#define Z_MAX_ENDSTOP_INVERTING false // Set to true to invert the logic of the endstop.
#define Z_MIN_PROBE_ENDSTOP_INVERTING false // Set to true to invert the logic of the probe.

/**
* Stepper Drivers
*
* These settings allow Marlin to tune stepper driver timing and enable advanced options for
* stepper drivers that support them. You may also override timing options in Configuration_adv.h.
*
* A4988 is assumed for unspecified drivers.
*
* Options: A4988, A5984, DRV8825, LV8729, L6470, TB6560, TB6600, TMC2100,
* TMC2130, TMC2130_STANDALONE, TMC2160, TMC2160_STANDALONE,
* TMC2208, TMC2208_STANDALONE, TMC2209, TMC2209_STANDALONE,
* TMC26X, TMC26X_STANDALONE, TMC2660, TMC2660_STANDALONE,
* TMC5130, TMC5130_STANDALONE, TMC5160, TMC5160_STANDALONE
* :['A4988', 'A5984', 'DRV8825', 'LV8729', 'L6470', 'TB6560', 'TB6600', 'TMC2100', 'TMC2130', 'TMC2130_STANDALONE', 'TMC2160', 'TMC2160_STANDALONE', 'TMC2208', 'TMC2208_STANDALONE', 'TMC2209', 'TMC2209_STANDALONE', 'TMC26X', 'TMC26X_STANDALONE', 'TMC2660', 'TMC2660_STANDALONE', 'TMC5130', 'TMC5130_STANDALONE', 'TMC5160', 'TMC5160_STANDALONE']
*/
#define X_DRIVER_TYPE TMC2208
#define Y_DRIVER_TYPE TMC2208
#define Z_DRIVER_TYPE TMC2208
//#define X2_DRIVER_TYPE A4988
//#define Y2_DRIVER_TYPE A4988
//#define Z2_DRIVER_TYPE A4988
//#define Z3_DRIVER_TYPE A4988
#define E0_DRIVER_TYPE TMC2208
//#define E1_DRIVER_TYPE A4988
//#define E2_DRIVER_TYPE A4988
//#define E3_DRIVER_TYPE A4988
//#define E4_DRIVER_TYPE A4988
//#define E5_DRIVER_TYPE A4988

// Enable this feature if all enabled endstop pins are interrupt-capable.
// This will remove the need to poll the interrupt pins, saving many CPU cycles.
//#define ENDSTOP_INTERRUPTS_FEATURE

/**
* Endstop Noise Threshold
*
* Enable if your probe or endstops falsely trigger due to noise.
*
* - Higher values may affect repeatability or accuracy of some bed probes.
* - To fix noise install a 100nF ceramic capacitor inline with the switch.
* - This feature is not required for common micro-switches mounted on PCBs
* based on the Makerbot design, which already have the 100nF capacitor.
*
* :[2,3,4,5,6,7]
*/
//#define ENDSTOP_NOISE_THRESHOLD 2

//================================================== ===========================
//============================== Movement Settings ============================
//================================================== ===========================
// @section motion

/**
* Default Settings
*
* These settings can be reset by M502
*
* Note that if EEPROM is enabled, saved values will override these.
*/

/**
* With this option each E stepper can have its own factors for the
* following movement settings. If fewer factors are given than the
* total number of extruders, the last value applies to the rest.
*/
//#define DISTINCT_E_FACTORS

/**
* Default Axis Steps Per Unit (steps/mm)
* Override with M92
* X, Y, Z, E0 [, E1[, E2...]]
*/
#define DEFAULT_AXIS_STEPS_PER_UNIT { 80, 80, 400, 93 }

/**
* Default Max Feed Rate (mm/s)
* Override with M203
* X, Y, Z, E0 [, E1[, E2...]]
*/
#define DEFAULT_MAX_FEEDRATE { 500, 500, 5, 25 }

//#define LIMITED_MAX_FR_EDITING // Limit edit via M203 or LCD to DEFAULT_MAX_FEEDRATE * 2
#if ENABLED(LIMITED_MAX_FR_EDITING)
#define MAX_FEEDRATE_EDIT_VALUES { 600, 600, 10, 50 } // ...or, set your own edit limits
#endif

/**
* Default Max Acceleration (change/s) change = mm/s
* (Maximum start speed for accelerated moves)
* Override with M201
* X, Y, Z, E0 [, E1[, E2...]]
*/
#define DEFAULT_MAX_ACCELERATION { 500, 500, 100, 5000 }

//#define LIMITED_MAX_ACCEL_EDITING // Limit edit via M201 or LCD to DEFAULT_MAX_ACCELERATION * 2
#if ENABLED(LIMITED_MAX_ACCEL_EDITING)
#define MAX_ACCEL_EDIT_VALUES { 6000, 6000, 200, 20000 } // ...or, set your own edit limits
#endif

/**
* Default Acceleration (change/s) change = mm/s
* Override with M204
*
* M204 P Acceleration
* M204 R Retract Acceleration
* M204 T Travel Acceleration
*/
#define DEFAULT_ACCELERATION 500 // X, Y, Z and E acceleration for printing moves
#define DEFAULT_RETRACT_ACCELERATION 500 // E acceleration for retracts
#define DEFAULT_TRAVEL_ACCELERATION 500 // X, Y, Z acceleration for travel (non printing) moves

/**
* Default Jerk limits (mm/s)
* Override with M205 X Y Z E
*
* "Jerk" specifies the minimum speed change that requires acceleration.
* When changing speed and direction, if the difference is less than the
* value set here, it may happen instantaneously.
*/
//#define CLASSIC_JERK
#if ENABLED(CLASSIC_JERK)
#define DEFAULT_XJERK 10.0
#define DEFAULT_YJERK 10.0
#define DEFAULT_ZJERK 0.3

//#define LIMITED_JERK_EDITING // Limit edit via M205 or LCD to DEFAULT_aJERK * 2
#if ENABLED(LIMITED_JERK_EDITING)
#define MAX_JERK_EDIT_VALUES { 20, 20, 0.6, 10 } // ...or, set your own edit limits
#endif
#endif

#define DEFAULT_EJERK 5.0 // May be used by Linear Advance

/**
* Junction Deviation Factor
*
* See:
* https://reprap.org/forum/read.php?1,739819
* http://blog.kyneticcnc.com/2018/10/c...or-marlin.html
*/
#if DISABLED(CLASSIC_JERK)
#define JUNCTION_DEVIATION_MM 0.08 // (mm) Distance from real junction edge
#endif

/**
* S-Curve Acceleration
*
* This option eliminates vibration during printing by fitting a Bézier
* curve to move acceleration, producing much smoother direction changes.
*
* See https://github.com/synthetos/TinyG/w...tion-Explained
*/

//#define S_CURVE_ACCELERATION