Thanks, you could be correct to suggest to build without docker, I may try if I can't fix it at the end.
I did more investigation, let me share you, maybe you can help.
The error is located in this single command (called by bitbake gdk-pixbuf) at last, it really likes an permission issue.
dey@0e2be187f104:~/workspace/imx-yocto-bsp/bld-imx93evk-xwayland/tmp/work/x86_64-linux/gdk-pixbuf-native/2.42.10-r0/build$ /home/dey/workspace/imx-yocto-bsp/bld-imx93evk-xwayland/tmp/work/x86_64-linux/gdk-pixbuf-native/2.42.10-r0/recipe-sysroot-native/usr/bin/nativepython3 /home/dey/workspace/imx-yocto-bsp/bld-imx93evk-xwayland/tmp/work/x86_64-linux/gdk-pixbuf-native/2.42.10-r0/gdk-pixbuf-2.42.10/build-aux/gen-resources.py --glib-compile-resources=/home/dey/workspace/imx-yocto-bsp/bld-imx93evk-xwayland/tmp/work/x86_64-linux/gdk-pixbuf-native/2.42.10-r0/recipe-sysroot-native/usr/bin/glib-compile-resources
--pixdata=/home/dey/workspace/imx-yocto-bsp/bld-imx93evk-xwayland/tmp/work/x86_64-linux/gdk-pixbuf-native/2.42.10-r0/build/gdk-pixbuf/gdk-pixbuf-pixdata --loaders=/home/dey/workspace/imx-yocto-bsp/bld-imx93evk-xwayland/tmp/work/x86_64-linux/gdk-pixbuf-native/2.42.10-r0/build/gdk-pixbuf/loaders.cache --sourcedir=/home/dey/workspace/imx-yocto-bsp/bld-imx93evk-xwayland/tmp/work/x86_64-linux/gdk-pixbuf-native/2.42.10-r0/gdk-pixbuf-2.42.10/tests --source ../gdk-pixbuf-2.42.10/tests/resources.gresource.xml tests/resources.c
(glib-compile-resources:27588): GLib-GIO-CRITICAL **: 08:16:28.374: g_subprocess_wait: assertion 'G_IS_SUBPROCESS (subprocess)' failed
(glib-compile-resources:27588): GLib-GObject-CRITICAL **: 08:16:28.374: g_object_unref: assertion 'G_IS_OBJECT (object)' failed
../gdk-pixbuf-2.42.10/tests/resources.gresource.xml: Failed to close file descriptor for child process (Operation not permitted).
Then I remember, I indeed did some modification to the docker repo, maybe that cause the issue
+ docker build --tag "seapapa/imx-yocto" \
+ --build-arg "DOCKER_WORKDIR=/home/dey" \
+ --build-arg "USER=dey" \
+ --build-arg "host_uid=1000" \
+ --build-arg "host_gid=1000" \
+ -f Dockerfile-Ubuntu-20.04 \
+ .