One thing i learned is not to f*ck up the .profile file. Otherwise the system gets bricked. XD But with the installation usb ( almost like a rescue usb ) i could remove the bad lines in there.
Most of the points never bothered me but I do agree on the last one. Compared to other distros' stock app stores the pop shop isn't great. But I think it should easily be possible to use a different app store app (at least for flatpaks).