From what I’m hearing during the one with the Sword relic you need to carry the sword with you out of the exit portal for that one to count. Again, I’m not 100%on that but that should be the ascendant challenge next week so try that.
Hey there! Bungie is currently investigating this issue. In the mean time, you will need to rerun all of the challenges again. Do you check your triumph every time you finished the challenge? If so, do you remember which one did not count?