No significant problems from my end. The only thing I ran into was 3 or 4 patches had an FX Loop, which needed to be changed to something else (I changed it to a Phaser), to work with my setup. After that everything was great.
The AE3 is working great, the tones on the new patches are WONDERFUL, and I've had no hiccups at all, other than the patches mentioned above. The backup, firmware upgrades, and new patches only took a few minutes - the transfers were FAST! I'm not sure what changed, but the USB transfers were blazingly fast - it literally probably took 5-minutes or so, to do all the things mentioned above, from the initial backups, to upgrading, then adding the new patch banks. I'm blown away by the tone, the AE3 AND the lack of hiccups. It's a win-win to upgrade, as far as I'm concerned - happy I did. the new patches REALLY sound good.