Couple of ideas:
The mechanical one is, if you are stripping the filament, you might not have the tension set correctly yet.
You need to adjust the tension any time you switch to a different kind of filament. (Like from PETG to ABS or back again.) On both nozzles, if you are using them both. If it's still stripping when you switch to a larger bore nozzle, then the problem
is the tension. (Or you are trying to shove it through before it melts, and after several successful hours, that's not as likely.)
Did you retract the filaments and look at the bite marks to see if you had them correct before you started the long prints? (I've run many 8 to 10 hour PETG prints without any issues, but you do need to make sure the bite marks are at no more than 15% depth, or you can strip it out very easily.) You really have to run the filament drive tension tests when you set up the machine for the dual, for both nozzles.
The "How To" is here:
viewtopic.php?f=3&t=2694
Also, slowing it down a little bit helps - give it time to melt the filament and make sure you're not trying to push it through too quickly.
Unfortunately the other possibility relates to software limitations....if you upgraded to
Windows 10, i understand there is an intermittent communications issue for that OS when you try to print over USB.
Try printing from the SD card if you have checked the tensions out on the drives and they are good, and you're not feeding full speed.
