Here's what I did... The baffles on the skimmer side are 6 inches tall made out of acrylic, on the fuge side they are 8". I put a 3/4" piece of acrylic in between all the baffles to hold them in place, using Weld-On #4. I glued them to the 20 Gallon Long aquarium using Marine Goop.
The Left side contains the hose with the "in" water. An AquaC EV120 skimmer and a Mag 5 pump. The Center section has the 300 watt thermometer, the return pump, and a smaller pump that powers the external UV sterilizer.
On the right side, the water from the sterilizer is returned into the Refugium section.
Pretty Simple, I guess. Thanks for everyone help!!