First, is there any flow that infiltrate into the ground? Your model has the underdrains capturing EVERYTHING that does not go to the overflow. Is flow rate through the rock to the underdrain really only .08 in/hr?
If this is not what you really intend (some flow infiltrates into the groudn), you need to model the basin differently. I can give you an example if this is the case.
I edited your model to make all the overflows the SECONDARY discharge. This makes it a lot easier to see what is going through the overflows.
I notice that the oscillations do not occur until the 100yr storm event. I noticed that your peak elevations exceed the flood elevations for several of your CB structures. (If this is the top of the structure, and there is more storage available after the rim/grate is exceeded, it can sometimes be helpful to add that storage to the model...or perhaps it flows elsewhere overland.) But, I digress...Manning's full flow for the 12" pipes is about 2 cfs. We are trying to put 7.4 cfs through them on the 100 yr event. I believe a combination of the "no storage" structures (the CBs), the pressure flow scenario, and the minimum dt limit are causing the oscillations.