I tried to find out which environment variable is responsible for breaking the gnome shell by disabling them in ~/.guix-profile/etc/profile one at a time.
It turns out to be the *GI_TYPELIB_PATH*. After commenting it out in the profile file my system works as usual. But then, this variable is not exported by installing ipython(otherwise it will let me know in the prompt after installation right?), so my guess would be installing ipython brings in typelib of Gtk, then gnome used the wrong .typelib file and crashed.
