In the deck editor, it looks like you’re using the same stationing for both the upstream and downstream sides; however, from what I can see of the bounding cross sections, the channel has different stationing in each location (~100 upstream, ~20 downstream).
The likely fix is to adjust the stationing of the upstream bridge deck to center it on the upstream channel area. That is, your upstream and downstream bridge decks will not have the same stationing, and may not have the same elevations, or even the same number of points.