This wasn't true for decades, `virtualenv` was de-facto standard isolation solution (now baked in as `python -m venv`, still de-facto standard), and `pip` is the package manager (we don't talk about setuptools/distutils, ssh!). If someone still used system-wide packages that was either because a) they were building a container or some single-purpose system; or b) they were sloppy or had no idea what they're doing (most likely, following some crappy tutorial). Or it was distro people creating packages to satisfy dependencies for Python programs - but that's a whole different story (and one's virtualenv shouldn't inherit system packages unless it is really really necessary and iif it makes sense to do so).
The problem started when one needed some external non-Python dependencies. Python had invented binary wheels and they're around for a while (completely solving issues with e.g. PostgreSQL drivers, no one needs to worry about libpq), but I suppose depending on specific versions of kernel drivers and CUDA libraries is a more complex and nuanced subject.
> Vs C/C++/Zig/Rust where you can just ship the compiled binary
Only assuming that you can either statically link, or if all libraries' ABIs are stable (or if you're targeting a very specific ABI, but I've had my share of "version `GLIBC_2.xx' not found"s and not fond of those).
In a similar spirit, any Python project can be distributed as one binary (Python interpreter and a ZIP archive, bundled together) plus a set of zero or more .so files.