The loco info on the "Overview" screen for CJP is missing, meaning that there is no display for type of loco, or unit number. Only the number of cars, tonnage, and length is displayed... HOWEVER, if you select a custom liveried loco to start with, then this information IS displayed! So, there seems to be a bug associated with the two BNSF liveried locos that are included with this route. My suspicion is that this may have something to do with why no custom liveries ever appear on AI on CJP. Although, it doesn't seem to explain why the liveries don't appear on freight wagons either... Series S
...had a similar experience on Playstation. My guess with the freight car livery problem is that there is a doubled box car from CJP shown in the Livery Designer menu, which prevents your own livery from being displayed randomly in timetable mode.
On further examination, it seems I was somewhat mistaken. The information never displays for the ES44C4, no matter if you have a custom livery or not. But, the information does display for the SD40-2, custom liveries or no. Regardless, I have yet to see any liveries appear, which must be a bug although I haven't seen any official confirmation of this.