Check your settings in adventurer config. I had the problem and noticed that I had the upgrade chance percentage was off.
Basically. I was doing G-Rift 25's and had the gem chance set to 60% and the gems were 26. So the chance to upgrade the gem was less than 60%. But it should move on to a different gem in the list.
but poke around in there and change those settings accordingly. Might be able to fix the issue.