Salta a partes aleatorias de código / binario mientras se depura, propio makefile para compilar

He creado un makefile:

#============================================#
#            Project Configuration           #
#============================================#

NAME = ProjectName
SOURCES_DIRECTORY = sources

# These directories should be created by build.py script
BUILD_DIRECTORY = builds
OBJECTS_DIRECTORY = objs

CORE = cortex-m3
# LOAD_TO_RAM: 0 - False, 1 - True
LOAD_TO_RAM = 0 

ifeq ($(LOAD_TO_RAM), 1)
    LINKER_SCRIPT = linker_ram.ld
else
    LINKER_SCRIPT = linker_rom.ld
endif

# C definitions
ifeq ($(RAM_FLASH), 1) 
    C_DEFS = -DRAM_FLASH
else
    C_DEFS =
endif

INC_DIRS = sources
SRCS_DIRS = sources

# extension of C files
C_EXT = c

# wildcard for C source files (all files with C_EXT extension found in current
# folder and SRCS_DIRS folders will be compiled and linked)
C_SRCS = $(wildcard $(patsubst %, %/*.$(C_EXT), . $(SRCS_DIRS)))

# extension of ASM files
AS_EXT = s

# wildcard for ASM source files (all files with AS_EXT extension found in
# current folder and SRCS_DIRS folders will be compiled and linked)
AS_SRCS = $(wildcard $(patsubst %, %/*.$(AS_EXT), . $(SRCS_DIRS)))

# optimization flags ("-O0" - no optimization, "-O1" - optimize, "-O2" -
# optimize even more, "-Os" - optimize for size or "-O3" - optimize yet more) 
OPTIMIZATION = -O0

# set to 1 to optimize size by removing unused code and data during link phase
REMOVE_UNUSED = 1

C_WARNINGS = -w

# C language standard ("c89" / "iso9899:1990", "iso9899:199409",
# "c99" / "iso9899:1999", "gnu89" - default, "gnu99")
C_STD = c99

VPATH = $(SRCS_DIRS)

#============================================#
#           Toolchain Configuration          #
#============================================#
TOOLCHAIN = arm-none-eabi-

CXX = $(TOOLCHAIN)g++
CC = $(TOOLCHAIN)gcc
AS = $(TOOLCHAIN)gcc -x assembler-with-cpp
OBJCOPY = $(TOOLCHAIN)objcopy
OBJDUMP = $(TOOLCHAIN)objdump
SIZE = $(TOOLCHAIN)size
RM = rm -f

.PHONY: all clean

#=============================================================================#
# various compilation flags
#=============================================================================#

# core flags
CORE_FLAGS = -mthumb -O0 -g -Wall -I. -mcpu=$(CORE) -mthumb -mfpu=fpv4-sp-d16 -mfloat-abi=hard -DSTM32F429xx

# flags for C compiler
C_FLAGS = -std=$(C_STD) -g -ggdb3 -fverbose-asm -Wa,-ahlms=$(OBJECTS_DIRECTORY)/$(notdir $(<:.$(C_EXT)=.lst))

# flags for assembler
AS_FLAGS = -g -ggdb3 -Wa,-amhls=$(OBJECTS_DIRECTORY)/$(notdir $(<:.$(AS_EXT)=.lst))

# flags for linker
LD_FLAGS = -T$(LINKER_SCRIPT) -g -Wl,-Map=$(OBJECTS_DIRECTORY)/$(NAME).map,--cref,--no-warn-mismatch

# process option for removing unused code
ifeq ($(REMOVE_UNUSED), 1)
    LD_FLAGS += -Wl,--gc-sections
    OPTIMIZATION += -ffunction-sections -fdata-sections
endif


#=============================================================================#
# do some formatting
#=============================================================================#

C_OBJS = $(addprefix $(OBJECTS_DIRECTORY)/, $(notdir $(C_SRCS:.$(C_EXT)=.o)))
AS_OBJS = $(addprefix $(OBJECTS_DIRECTORY)/, $(notdir $(AS_SRCS:.$(AS_EXT)=.o)))
OBJS = $(AS_OBJS) $(C_OBJS) $(CXX_OBJS) $(USER_OBJS)
DEPS = $(OBJS:.o=.d)
INC_DIRS_F = -I. $(patsubst %, -I%, $(INC_DIRS))
LIB_DIRS_F = $(patsubst %, -L%, $(LIB_DIRS))

ELF = $(BUILD_DIRECTORY)/$(NAME).elf
HEX = $(BUILD_DIRECTORY)/$(NAME).hex
BIN = $(BUILD_DIRECTORY)/$(NAME).bin
LSS = $(BUILD_DIRECTORY)/$(NAME).lss
DMP = $(BUILD_DIRECTORY)/$(NAME).dmp

# format final flags for tools, request dependancies for C++, C and asm
C_FLAGS_F = $(CORE_FLAGS) $(OPTIMIZATION) $(C_WARNINGS) $(C_FLAGS) $(C_DEFS) -MD -MP -MF $(OBJECTS_DIRECTORY)/$(@F:.o=.d) $(INC_DIRS_F)
AS_FLAGS_F = $(CORE_FLAGS) $(AS_FLAGS) $(AS_DEFS) -MD -MP -MF $(OBJECTS_DIRECTORY)/$(@F:.o=.d) $(INC_DIRS_F)
LD_FLAGS_F = $(CORE_FLAGS) $(LD_FLAGS) $(LIB_DIRS_F)

#contents of output directory
GENERATED = $(wildcard $(patsubst %, $(BUILD_DIRECTORY)/*.%, bin d dmp elf hex lss lst map o))


#=============================================================================#
# make all
#=============================================================================#

all : $(ELF) $(LSS) $(DMP) $(HEX) $(BIN) print_size

# make object files dependent on Makefile
$(OBJS) : Makefile
# make .elf file dependent on linker script
$(ELF) : $(LINKER_SCRIPT)

#-----------------------------------------------------------------------------#
# linking - objects -> elf
#-----------------------------------------------------------------------------#

$(ELF) : $(OBJS)
    @$(CC) $(LD_FLAGS_F) $(OBJS) $(LDLIBS) -o $@

#-----------------------------------------------------------------------------#
# compiling - C source -> objects
#-----------------------------------------------------------------------------#

objs/%.o : %.$(C_EXT)
    @$(CC) -c $(C_FLAGS_F) $< -o $@

#-----------------------------------------------------------------------------#
# assembling - ASM source -> objects
#-----------------------------------------------------------------------------#

objs/%.o : %.$(AS_EXT)
    @$(AS) -c $(AS_FLAGS_F) $< -o $@

#-----------------------------------------------------------------------------#
# memory images - elf -> hex, elf -> bin
#-----------------------------------------------------------------------------#

$(HEX) : $(ELF)
    @$(OBJCOPY) -O ihex $< $@

$(BIN) : $(ELF)
    @$(OBJCOPY) -O binary $< $@

#-----------------------------------------------------------------------------#
# memory dump - elf -> dmp
#-----------------------------------------------------------------------------#

$(DMP) : $(ELF)
    @$(OBJDUMP) -x --syms $< > $@

#-----------------------------------------------------------------------------#
# extended listing - elf -> lss
#-----------------------------------------------------------------------------#

$(LSS) : $(ELF)
    @$(OBJDUMP) -S $< > $@

#-----------------------------------------------------------------------------#
# print the size of the objects and the .elf file
#-----------------------------------------------------------------------------#

print_size :
    @echo.
    @echo Size of target .elf file:
    @$(SIZE) -B $(ELF)
    @echo.


# include dependancy files
-include $(DEPS)

Crea archivos binarios sin ningún error. Estoy usando GNU ARM Embedded Toolchain y GNU MCU Eclipse Windows Make Tools ... sin embargo, en lugar de Eclipse estoy ejecutando todo manualmente desde la línea de comandos usando makefile.

Aquí hay un script de vinculador, generado con STM32 Cube:

/*
*****************************************************************************
**

**  File        : LinkerScript.ld
**
**  Abstract    : Linker script for STM32F429ZITx Device with
**                2048KByte FLASH, 192KByte RAM
**
**                Set heap size, stack size and stack location according
**                to application requirements.
**
**                Set memory bank area and size if external memory is used.
**
**  Target      : STMicroelectronics STM32
**
**
**  Distribution: The file is distributed as is, without any warranty
**                of any kind.
**
*****************************************************************************
** @attention
**
** <h2><center>&copy; COPYRIGHT(c) 2014 Ac6</center></h2>
**
** Redistribution and use in source and binary forms, with or without modification,
** are permitted provided that the following conditions are met:
**   1. Redistributions of source code must retain the above copyright notice,
**      this list of conditions and the following disclaimer.
**   2. Redistributions in binary form must reproduce the above copyright notice,
**      this list of conditions and the following disclaimer in the documentation
**      and/or other materials provided with the distribution.
**   3. Neither the name of Ac6 nor the names of its contributors
**      may be used to endorse or promote products derived from this software
**      without specific prior written permission.
**
** THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
** AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
** IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
** DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE
** FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
** DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
** SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
** CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
** OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
** OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
**
*****************************************************************************
*/

/* Entry Point */
ENTRY(Reset_Handler)

/* Highest address of the user mode stack */
_estack = 0x20030000;    /* end of RAM */
/* Generate a link error if heap and stack don't fit into RAM */
_Min_Heap_Size = 0x200;      /* required amount of heap  */
_Min_Stack_Size = 0x400; /* required amount of stack */

/* Specify the memory areas */
MEMORY
{
RAM (xrw)      : ORIGIN = 0x20000000, LENGTH = 192K
CCMRAM (rw)      : ORIGIN = 0x10000000, LENGTH = 64K
FLASH (rx)      : ORIGIN = 0x8000000, LENGTH = 2048K
}

/* Define output sections */
SECTIONS
{
  /* The startup code goes first into FLASH */
  .isr_vector :
  {
    . = ALIGN(4);
    KEEP(*(.isr_vector)) /* Startup code */
    . = ALIGN(4);
  } >FLASH

  /* The program code and other data goes into FLASH */
  .text :
  {
    . = ALIGN(4);
    *(.text)           /* .text sections (code) */
    *(.text*)          /* .text* sections (code) */
    *(.glue_7)         /* glue arm to thumb code */
    *(.glue_7t)        /* glue thumb to arm code */
    *(.eh_frame)

    KEEP (*(.init))
    KEEP (*(.fini))

    . = ALIGN(4);
    _etext = .;        /* define a global symbols at end of code */
  } >FLASH

  /* Constant data goes into FLASH */
  .rodata :
  {
    . = ALIGN(4);
    *(.rodata)         /* .rodata sections (constants, strings, etc.) */
    *(.rodata*)        /* .rodata* sections (constants, strings, etc.) */
    . = ALIGN(4);
  } >FLASH

  .ARM.extab   : { *(.ARM.extab* .gnu.linkonce.armextab.*) } >FLASH
  .ARM : {
    __exidx_start = .;
    *(.ARM.exidx*)
    __exidx_end = .;
  } >FLASH

  .preinit_array     :
  {
    PROVIDE_HIDDEN (__preinit_array_start = .);
    KEEP (*(.preinit_array*))
    PROVIDE_HIDDEN (__preinit_array_end = .);
  } >FLASH
  .init_array :
  {
    PROVIDE_HIDDEN (__init_array_start = .);
    KEEP (*(SORT(.init_array.*)))
    KEEP (*(.init_array*))
    PROVIDE_HIDDEN (__init_array_end = .);
  } >FLASH
  .fini_array :
  {
    PROVIDE_HIDDEN (__fini_array_start = .);
    KEEP (*(SORT(.fini_array.*)))
    KEEP (*(.fini_array*))
    PROVIDE_HIDDEN (__fini_array_end = .);
  } >FLASH

  /* used by the startup to initialize data */
  _sidata = LOADADDR(.data);

  /* Initialized data sections goes into RAM, load LMA copy after code */
  .data : 
  {
    . = ALIGN(4);
    _sdata = .;        /* create a global symbol at data start */
    *(.data)           /* .data sections */
    *(.data*)          /* .data* sections */

    . = ALIGN(4);
    _edata = .;        /* define a global symbol at data end */
  } >RAM AT> FLASH

  _siccmram = LOADADDR(.ccmram);

  /* CCM-RAM section 
  * 
  * IMPORTANT NOTE! 
  * If initialized variables will be placed in this section,
  * the startup code needs to be modified to copy the init-values.  
  */
  .ccmram :
  {
    . = ALIGN(4);
    _sccmram = .;       /* create a global symbol at ccmram start */
    *(.ccmram)
    *(.ccmram*)

    . = ALIGN(4);
    _eccmram = .;       /* create a global symbol at ccmram end */
  } >CCMRAM AT> FLASH


  /* Uninitialized data section */
  . = ALIGN(4);
  .bss :
  {
    /* This is used by the startup in order to initialize the .bss secion */
    _sbss = .;         /* define a global symbol at bss start */
    __bss_start__ = _sbss;
    *(.bss)
    *(.bss*)
    *(COMMON)

    . = ALIGN(4);
    _ebss = .;         /* define a global symbol at bss end */
    __bss_end__ = _ebss;
  } >RAM

  /* User_heap_stack section, used to check that there is enough RAM left */
  ._user_heap_stack :
  {
    . = ALIGN(8);
    PROVIDE ( end = . );
    PROVIDE ( _end = . );
    . = . + _Min_Heap_Size;
    . = . + _Min_Stack_Size;
    . = ALIGN(8);
  } >RAM



  /* Remove information from the standard libraries */
  /DISCARD/ :
  {
    libc.a ( * )
    libm.a ( * )
    libgcc.a ( * )
  }

  .ARM.attributes 0 : { *(.ARM.attributes) }
}

Estoy depurando el código en STM32 usando J-Link Ozone ... Desafortunadamente, el flujo del programa se comporta de manera extraña, a veces salta a la mitad de alguna función pero no debería ... Cada vez, después de la función System_Init, salta a una parte completamente diferente del código ... Estoy tratando de averiguar qué causa el cambio de registro de PC, pero sin progreso hasta ahora. ¿Qué hago mal, qué debo verificar y qué datos adicionales debo agregar aquí para comprender mejor mi trabajo? Gracias ...