Is there any sort of documentation for the PCE emulator? I have found it mentioned at many places on this site but can't really figure out how to use it. Googling does not show any useful results and most of the time it is confused with the PCem emulator which is different.
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http://www.hampa.ch/pce/about.html
You can use floppies by adding them to the CFG File in the emulator folder.
You can get command line options by using the --help parameter. There had been some rather terse documentation included with some of the zip archives, but I don't know if that has been kept up to date.
The simplest way to start is to download the example virtual machines, then slowly learn how to manipulate the config files. You will probably want to update the EXEs with newer builds, however.