How is the belly pan secured to the frame? It appears to be sitting in between the drive chain loop. Most drivetrains run the belly pan riveted or screwed to the very bottom of the drivetrain, to the 2x1's. However, in your case, it does look like you need to change the wheel sprockets in order to switch to a bottom-mounted belly pan.
The output side of the Victors on the right are being blocked by the cRIO. If you're going to keep it that way, invest in some 90-degree terminal connectors?
Also, the placement of the power switch in relation to the PDB's battery terminals and the area for fastening the Anderson connector on your battery box is a little tight and normal 6AWG wire may not be able to loop around the area that well. However, you should be able to pull it off with some welding cable.
Spike and Air Tank for the Compressor
Finally, your battery box doesn't necessarily have to be that high. It also looks a little tight. I would say do a little prototyping. Only the corners of the box are "extremely" important, the extra material on the "faces" of the battery box may or may not be necessary.