Nuitka onefile can't find directory for dynamic extension loading

I'm working on a Pycord bot project, and I'm using Nuitka to compile it. My goal is to compile the main script as a single file (--onefile) for distribution, but still be able to dynamically load command modules from a commands/ directory at runtime.

Project Structure (I must keep this layout):

Project/
├── script.py        # compiled with --onefile
└── commands/
    ├── __init__.py  # NOT compiled
    └── ping.py      # compiled with --module

Reason for this structure is I want to load command extensions dynamically like this:

import os

def load_all(bot):

    cmds_dir = os.path.dirname(__file__) # Root directory for the commands.
    files    = os.listdir(cmds_dir)      # List of files & folder of commands root directory.

    for file in files:
        name, ext = os.path.splitext(file)
        if name != "__init__":
            bot.load_extension(f"commands.{name}")

Each commands/*.py file contains:

from discord.ext import commands

def setup(bot):
    @bot.command()
    async def ping(ctx):
        await ctx.respond("Pong!")

After building with Nuitka (script.py using --onefile, and ping.py with --module), running the executable gives:

┌──(.venv)─(...)-[~/Desktop/PyTesting]
└─$ ./script.bin
Traceback (most recent call last):
  File "/tmp/onefile_278932_1750239107_362003/script.py", line 21, in <module>
  File "/tmp/onefile_278932_1750239107_362003/commands/__init__.py", line 7, in load_all
FileNotFoundError: [Errno 2] No such file or directory: '/tmp/onefile_278932_1750239107_362003/commands'

My goals:

• script.py compiled as a single executable.
• __init__.py should stay uncompiled (used for dynamic loading logic)
• Only recompile individual command modules (like ping.py) when needed, instead of recompiling everything — to speed up development.
• This structure is used to only recompile command files if modified, if any fix to this issue with this feature it will be fine.