Just an FYI that this issue has finally been fixed in our 4.1.9 update.
Now when doing a Shuffle Questions, each question’s answer option colors are retained. It no longer copies the first question’s answer option colors.
When adding Shuffle Answers, we do continue to only shuffle the actual answer values, keeping the answer colors in order. We do this to maintain any set answer color patterning. If we shuffled the answer colors too, those patterns would be lost. Yes, this does mess things up if the actual answer goes with the color of the answer option (e.g. an answer option “Red” set to the color red). But usually the former, not the latter is the more common setup.