I'll draw up a rough diagram when I come home from work if you want it.
There are three baffles on the right side of the tank. The first baffle (the farthest right) is set to the bottom and is a bit higher than the rest of the baffles, because I run my HOB skimmer in that area. The one after that is set to the top, the last one is set to the bottom. So when the water enters the sump, it goes over the first baffle, under the second, and over the last one. After these baffles, the water goes through the refugium area. This area only has leftover baserock and chaetomorpha, because like you thought, its so I can easily siphon out the sediment (I'm running a bare bottom tank). There is a baffle just before the return pump, just to seperate the pump from the refugium. Not the most efficient design, but it works and its simple.
HTH
-Richer
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