Thanks for the update. WiFi has gone out twice this week. Once the day of the update, after I started a 30 hour print, then again on Thursday. Both times a reboot fixed it, but this never happened on 0.92.
The bad layers may have been a partial clogged nozzle. I had just finished printing something for my wife using a glittery filament before upgrading my Pi. I am wondering if the "glitter" caused a partial clog. You gotta love it when something goes wrong right before an upgrade but you didn't know so you think it was the upgrade that did it. I ended up printing from an SD card and the print looks identical to the Repetier Pi print. I swapped to an all metal hot end and recalibrated everything and it seems to be doing much better.
I will definitely check out the new settings and make sure everything is good. I understand things can change a lot with such a big jump in versions. Looking forward to 1.2.2 getting the web interface fixed :)