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Note that I have reviewed your question. I believe that the way you have the model setup is correct for the first part. You can have the detention pond connected to a junction using an orifice (or pipe) and model the interconnection through the storm drain that you have at the bottom of the detention pond. Alternatively, you can have a small detention pond replace the junction. In that way, you can more accurately represent the storage area associated with the storm drain.
Note, however, that you will want to run your model using the hydrodynamic routing method. As such, you do not want to use a flow diversion structure, since it will be converted to a junction when operating the hydrodynamic routing method. However, to model the overflow, simply connect the weir structure to the appropriate storage element. (This is were it got a little confusing in your description.) If the overflow is from the detention pond, then connect the weir to this element. If the overflow is from the storm drain junction box, then connect the weir to this element.
If you continue to have questions, please provide me with a sketch of what you are trying to represent and your StormNET model file.
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