I'd take a look at the sand for sure. The sand bed debate is up there with politics and religion but I don't think anyone can argue that there are people out there with sand beds and nitrate problems, For some reason nobody can figure the beds aren't working right and are probably contributing to issuesby trapping crud.
The other thing to look at is the fuge, what kind of growth are you getting in there? From my experience a cheato fuge that is really working well is the best nitrate / phosphate removal tool there is. To get it really working you need to put a little work into it though. A good goal would be having good enough growth that you can remove half your cheato and have it replenish in 10 to 14 days. To do that you need some good lighting, Philip's Daylight CFs work good with reflectors, and you MUST dose iron.
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