Sounds great.
When you cut those branches, if all you can do is stick them in a piece of moist rockwool or glass of water, try it, you may get a new plant or two out of it.
Just consider it a little side thing that was trash if it doesn't take any way.
You might be surprised.
Good Luck!
GB
I decided to take your advice and make clones out of those branches

Like you said, even if it doesn't work I haven't lost anything. I honestly don't even know what I would do if they rooted... Like I wouldn't have a space for them, but at the same time I might successfully clone for the first time and wont be so paranoid about it in the future.
I actually ordered some clonex gel to put on them before they go into the wool, and so I have it handy in the future.
The plant is looking like 100% better. I think we have found a harmony for the time being. I am still a little scared about what will happen in flower, if I run into some of these same issues it will cost in yield for sure so hopefully I have it under control....
Here she is at day 23:




