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I had the same issue with my Rpi3, the update with Zigurana’s suggestion worked for me.
It’s faster and easier to just use a USB drive to tranfer ROMS BTW. Here are the steps just in case you haven’t tried it.

(ensure that your USB is formatted to FAT32)

first create a folder called retropie on your USB stick

plug it into the pi and wait for it to finish blinking

pull the USB out and plug it into a computer

add the roms to their respective folders (in the retropie/roms folder)

plug it back into the raspberry pi

wait for it to finish blinking

refresh emulationstation by pressing F4, or choosing quit from the start menu