Its really not to late to monitor your lid. but you need to go with what you truly feel . In regard to the root rot i saw that in the earlier part of the journal and figured you where right because ever pic that i saw of the root at that time the entire basket was wet and i could see the cube was wet , meaning at that time the water level was two high and her root zone was staying completely saturated which is a reason your leaf's where droopy in the beginning ... i didn't mention it in my post because you had corrected it . As far as your girl only liking the bucket half full , im going to guess if you filled it to my recommendation she would droop . If i am correct its because your air stone ,pump or both are inadequate . When it comes to pumps do not focus on gallons , focus on liters per minute / LPM as pumps rating for gallons are for fish not plants in hydroponics .I will post pics of what i have in a tent and what i recommend , you should be able to find all on amazon as far as the pump the single outlet one with suite you just fine and its damn near silent and for the air stone or stones i recommend the 2" barrel style (be sure to saok them before you put them to work) Now when you see this little system you will see the hole i speak of and how i can access everything including the air stone with ease . pictures are just for illustration I'm not looking to hijack your thread . Also with air stones you want to look for bubbles not just agitation of the solution the air bubbles are what breaks the surface tension of the water and adds oxygen to the solution .
Edited to add: almost slipped my mind ...know that some brands of nutes will stain your roots .