Probably a bit more polished UX (especially for not too tech-savy people)

but I’d say the biggest difference is integrated multidevice support, either via their cloud or selfhosted…

In some Linux distributions it blocks you from installing system packages via pip, often there are then packages which can be installed via your distros package manager.

With arch for example:

sudo pacman -S python-'package'

Or, as others mentioned using venv.