Rbredding;401824 wrote: i meant the current (no divider) section, not the two options that you've shown pictures of..
the bubble trap is only needed where water flow is so fast that the micro and larger bubbles don't have a chance to rise to the surface, the bubble trap holds them in the first section so that "bubble-less" water will continue..
with a Refugium, the flow should be slower, so that the bubbles have the chance they need to rise.
I think that you can DEFINITELY work with the sections that he's put in place, but you'll need to add a bubble trap and another divider to really make it work for you...
I would add the bubble trap turned 90* from how you've shown it in your white line drawings.. run the bubble trap from the bottom left corner to the top right corner of the drawing... (see the image below)
with this design, you can actually raise the level of the water in the refugium to whatever height you want to use, (the water flowing into the bubble trap will enter at the cutout in that section, but will leave the bubble trap at the elevation of the last baffle - that touches the divider)
this will raise the water level in the intake section AND the skimmer section, but that shouldn't be a bad thing.. fill the intake section with "clean" live rock and your skimmer will fit into the skimmer section (you can pipe the output of your skimmer to put the skimmed water directly into the refugium or into the return section (nothing says that your skimmer has to empty into the same section it pulls from... it should be "bubble-less" water, so there's really no issue with piping it directly into the return section)