Very cool riparium! Just a thought about the dirty glass - have you tried the super fine steel wool to clean up the stains? I use it on my aquarium glass to get the hard water stains off and I also use it on my glass stove top. It will not scratch glass, but you must get the grade #0000. You said the CLR had started to eat into the glass so I doubt steel wool will help with that at all. Just don't get a rock stuck in the wool because that will indeed scratch the hell out of things. Just did that to my rimless 75 and I'm very mad about it (didn't know until I had cleaned the entire front of my tank).
What happened to the black & silver Pilea? I forget its name at the moment, but I really liked that plant, and have that same Pilea, or one that looks almost exactly like it, and I've been thinking it'd make a good riparium candidate.