Remember that I am comparing the resulting images, not the files. It could be there are still elements of this image that are not actual configuration data.
The only compression option I see in the file converter seems to be to indicate if the input SOF is compressed, not the output.
My pof and jic files are around 128KB. This seems to correspond to the 128KB size of the EPCS1 device, and so would suggest an uncompressed format, but I know my project settings have compressed bitstreams on.
I did do an examine and save file in the Quartus programmer, but it seems I can only get another pof of questionable format. A raw binary is the only thing that would makes sense to compare. Even that wont tell me if the image differences I see are for legitimate reasons such as an embedded timestamp, or are a bug. I would need an explanation of the POF format - need those docs.