Are you using a HOB filter like an AquaClear? They have a similar setup to what you describe. In that type of filter, the order is so that as the water flows through the filter, the foam sponge catches the bulk of the larger debris such as waste and plant material; then the carbon can assist with filtering the now slightly cleaner water (without the debris), and then the bio max balls sit at the top so that they stay as clean as possible (AFTER the 2 previous stages of filtering). The purpose of the bio max balls is to provide space for the beneficial bacteria to grow. This bacteria is needed for the tank to be "cycled". So, if you put the bio max in first, it would get all gunked up with leaves and fish poop, etc. and not have room for the bacteria. It goes in order of: mechanical filtration - sponge or other material (getting the gunk out), chemical filtration - carbon (note that carbon does NOT remove ammonia, nitrates, or nitrites), and then biological filtration.
Carbon isn't strictly necessary and if you are trying to get a "natural" look with tannins, etc. then you probably don't want to use it at all. It will take out the color. I have both read this and observed it in my tanks. If I use carbon, the water is more clear and less yellow. I actually prefer the more yellow look for certain fish, as their colors look better in the more "natural" water that has a bit of yellow tint from the plants. However, if you want crystal clear water, do use the carbon but be sure to replace it as instructed. It doesn't stay active very long and you will notice your tank getting a slightly yellow cast. Also, carbon is good to remove medications from the water, which is why medications always have as the first instruction to remove the carbon before dosing. (That said, medicine should be a last resort because if the environment is clean, fish are remarkable at healing themselves.)