What about .ADF?

[Ral-Clan]

1. WinUAE will read ADF files (and DMS files) and the emulated Amiga will treat them as if they were floppies
2. There is software available to allow one to mount an ADF or DMS file as a "virtual floppy"...RAD: volume, on a real Amiga.  I have used this software and found it on Aminet (can't remember the title now - there are various options).
3. There is also software available available on Aminet to write ADFs and DMS images back to real Amiga floppies.

[Ral-Clan]

Need special hardware to make an ADF of copy protected Amiga disks?

I had never encountered this, but perhaps there are some really tricky disks I've never encountered.

Anyway, I wonder if you could do it by mounting a blank disk image on your Amiga Workbench (using one of the ADF to RAD: mounting utilities) and then using one of the Amiga nibbler or really thorough disk copying utilities to copy the real copy protected floppy to the RAD:, then DMS'ing or ADF'ing the RAD: back to a disk image.