I appreciate everyone's comments. Thank you! I don't have any fish yet and probably shouldn't focus on water clarity just yet anyway. I have a long way to go. The pea gravel for the bog was the main culprit I think, despite rinsing it first. I will definitely build up the berm.
Ah, but it's always the right time to focus on your water, LOL! Actually, since you don't have any fish yet, this probably is the best time to work at getting the mud & dirt out. Just be sure you have taken care of any defects [such as low spots] where more runoff can enter. If you think there is a thick layer down there, maybe get in the water with a plastic bucket and see what you can scoop out -- yes, it's going to get murky all over again, but this is a good way to get the solid stuff. Then try this -- and
@sissy is the expert on this technique -- get something like a plastic crate or clothes basket. Buy some polyester quilt batting and layer this in the container. Then find a way to divert your water flow [a "dirty water" pump or sump pump....] so that you have the water flowing through the quilt batting and then back into the pond. It doesn't have to be a rapid exchange -- but you'll have to change and rinse the batting often. Guarantee it will get the particles and fines out!