I am comverting my all-glass #4 trickle filter into a fuge, will be replacing the bio-balls with LR rubble.
The key is to make sure you have enough LR to support the system, I have about 100lbs of LR in my 210, not enough to support the system, so I pick up ~50lbs every pay (2 weeks) until i have atleast 200lbs.
So I am about a month or so away of being able to start the swap.
Bio-Balls are very affective and if kept clean work well, I have 2 puffers 6" porcy and a 9" golden, they eat like cows and my trates never go over 10 but thats because I maintain my tank, so yes you can affectivly use bio-balls as long as you clean about 1/4 of them about once a month, I just swush them around in a bucket of the old saltwater when i do a water change, once a month.
High nitrates are usually caused by overfeeding and/or poor tank maint. in general.
If your tank is fairly new the brown algae is normal, mine turned from brown to green and now its starting to turn purple, but i dont have hair algae.
I clean up crew also helps out ALOT!!!
Hope this helps!