I went back to the previous meditation circle, rested, then quit my game. Coming back to the area with the flower I made sure to kill all the enemies near the starting ledge. Walking up to the flower I was able to scan it this time.
I had the excat same problem but on the PC Version of the game. I did what the previous post said to do but it didn't work first time, i discovered you need to kill all four enemys. so what i did was the moment i got to the top i ran into range of flamethrower trooper and did force pull kill, then i ran back to the ledge to kill the other trooper. after that i kill the slugs near the ledge. move to the plant and bd1 jump off to scan it. i also point out that there is also a scan for the crash clone transport ship you need to swim throught to get to the shadowland and it easily missed.
update: i had a the same bug happen when i came to scan the shayyko bird, bd-1 wouldn't jump off and move to the scan location, i had to do the same thing as i mention in the other post, quit game and reload but i kill everything 3 spiders and 3 slugs. then i manage to get the scan.
Same here on PS4. Had to be sure to kill all 3 stormtroopers and 2 rams myself, then it finally worked
