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Thats odd because the only part edited was the addition of the controls and hot keys function? The uploaded /opt/retropie/configs/all/retroarch.cfg came in the newly installed copy of v3.0beta4.

I ended up reverting back to the Rpi2 2.6 image and following the tutorials. Everything is up and running great! I just have to fix the video aspect ratio.

Do you recommended trying again to work with the 3.0beta4 image?