Ugh, so to fix the duping bug, it created another bug!!! The bug fix was that once you leave the area, anything that was on the ground disappears.
For example, when you finish a rift, find out that your blood shards is maxed out, you'll teleport back to town, spend them to make room and then teleport back to the rift only to see that the ones you couldn't pick up are no longer there!!
So take note - before you run a rift/Greater Rift, make sure you are not near or maxed out on blood shards!
Which system may I ask? PS4 or XboxONE