I would personally have chalked that up as usability-- because there are facilities for secure file transfer between computers, but I get the argument.
Particularly since the common tools like SCP give way too much access unless you go through special effort.
> Floppy disks, Hard disks
As you note there are 'auto run' like issues, also file systems are not historically very robust against against malicious data.
Hard disks themselves have host flash-able firmware and microcontrollers and get either DMA access (e.g. over SATA) to the system or get USB connected and the ability to pretend to be arbitrary usb devices like HID or exploit vulnerable usb drivers. So at least in theory a compromised system can turn your drive malicious such that it compromises other systems.
Though an attacker that sophisticated probably also has hypervisor escapes.
> Audio modem, Manual transcription
Personally I'm fond of just RS232 serial.