Took the liberty of rotating the layout 90° for a larger view in SCARM on my laptop. I added a baseboard based on the dimensions in the photo and hope I got them right. As you can see I'm a fan of color-coding, so the blue tracks are the mail level at 0" elevation, the gold are the upper level at 8" elevation and the purple are the grade, which is 3.7%.
A lot of sections were "off kilter", so I straightened everything by either using cut sectional curves or adding flex curves after the straight sections were added. I think I kept all the flex curves O-54 or larger, but I suggest you cut sectional curves rather than bend flex for easier installation. In most cases, a half section of O-54 is needed to make a smooth curve and it's a lot easier to cut a full section in half than to bend a relatively short piece of flex.
Because you used flex, there was an "S" curve in the blue loop above the storage tracks, so I reworked that, though now the aisle by the upper 2'4" wall *or whatever that is) may be too narrow. If those 2'4" sections are walls, I assume you plan to tunnel through the upper one.
NOTE: Edited the elevations and added a 3D image.
