Have you thought about a rating curve instead? The approach that I would probably use would be to develop a rating curve outside of RAS then apply it to an inline structure to represent the culvert. Would be a tricky thing as the culvert changes from inlet to outlet control while I have not modeled a culvert like yours, I have used this approach to model complex structures that do not exactly fit the standard inputs.
I am thinking to make a lidded cross section since I have a cross section in upstream and down stream and I will get few cross section with in the culvert with interpolation so I can get the real opening of the culvert.
just wondering will it give me the correct water flow level in steady flow analysis?