My add_custom_command does not use all arguments on first cmake configuration step but does if configuration step run a second time

Question

I have a problem with CMake versions 3.23.1...3.27.7 (I've used the latest available major release on each).

After the configure step is run, cmake -S . -B b -DCMAKE_BUILD_TYPE=Release -G Ninja, the build directory will lack the first (second to last) argument specified in the add_custom_command used to call a COMMAND. If I immedlaly run the same configure lines as above again, then my script will be called with both arguments specified in the CMakeLists.txt file.

Example, file entrylevel/CMakeLists.txt

cmake_minimum_required(VERSION 3.23..3.25)

project(EntryLevelProject
        VERSION 0.1.0
        DESCRIPTION ""
        HOMEPAGE_URL ""
        LANGUAGES C CXX ASM
)

add_executable(foo hello.m.cpp)
target_link_libraries(foo
        PRIVATE
        special::branch
)
add_custom_command(TARGET foo
        POST_BUILD
        COMMAND
        "${CMAKE_CURRENT_SOURCE_DIR}/my_script.sh"
        "${SpecialFilesProject_BINARY_DIR}/mango"
        "${EntryLevelProject_BINARY_DIR}/apple"
        WORKING_DIRECTORY ${CMAKE_BINARY_DIR}
)

So in my example the script will only be called with .../my_script.sh .../apple and not .../my_script.sh .../mango .../apple.

Trying a minimal example (like the above) does not produce this error.

Also trying a structure closer the real project files like this:

├── CMakeLists.txt
├── entrylevel
│   ├── CMakeLists.txt
│   ├── hello.m.cpp
│   └── my_script.sh
└── specialfiles
    ├── CMakeLists.txt
    ├── inc
    │   └── specialbranch.h
    ├── one.cpp
    └── two.cpp

Also does not produce the error. I've also tried to use generator -G "Unix Makefiles" and this gives the same result as with -G Ninja.

So, any ides as to what could be the cause of my problem that I can't reproduce in a simple fashon?

I should add that I'm using the --toolchain options with my cmake invocation but calling it without still has the same problem with lost argument first time cmake is called.