sorry to bump up an old topic, but i'm having the same problem.
my tank has been running for about 10 months now, and the water went yellow as i could only give the bogwood a good hosing down, i couldn't find anything big enough to soak it in as the 2 pieces i have are massive! - even frequent water changes and changing carbon in both filters regularly never toned down this awful darkness/yellow out of the water.
the tank always seemed dark, without the lights on at night the tank would look black.
i recently had a problem with whitespot, and during the treatment i took all the (stagnant) sand out of the tank, thoroughly rinsed off some river pebble gravel which is now no more than an inch deep anywhere, did a large 60% change in water during all the messing about with the tank, gave the filter a boost with a pack of bacteria and enjoyed the water looking crystal clear.... for about 6 days.. i finished medicating the tank about 3 days ago now, did a 30% change and cleaned half the gravel last night, and set up the 2nd filter again (i broke it last week and had to wait for replacement parts). (and yes i use a decent dechlorinator/water conditioner

)
currently no carbon in the filter, i'll run out and get some later and get the water tested while i'm out - water has always been perfect in this tank, even during the whitespot and nasty sand disaster recently.
lights are only on for 4-6 hours, there is some direct sunlight on the tank, but only for a short while and it is avoidable so it's not every day, very very small amounts of algae on the glass that the plecs are taking care of, in general all the fish seem very much happier, all nice and bright in colour, all hungry for food at feeding time, lots of activity, have seen signs of breeding in the last few days so i can't be going far wrong.
but why the yellow tinge?