In addition to the floor previously noted there are several detail differences:
Roof Corners notched on C&EI
Tack Board Locations one high, one middle
Bottom Rib on Doors on C&EI is shorter
Side corner brace angles appear to be different
Horizontal "reinforcement" on lower part of side channel on WAB not on C&EI
Ladder on C&EI while drop grab irons on WAB
Door low handles on C&EI with mid door grabs on WAB and different styles
Cannot see the roof and ends on the C&EI but MIGHT be another difference.
Will leave it to others to count the rivets!