Did you reload your I/O map for car or group when you reloaded the job .cfg? The original may not have had security I/Os on it, yet your laptop has that image, so you can "see" them, yet your CPUA does not. Simple reload of car and group image on IMS should see if this is an issue.
Next, when changing security parameters the elevator must be turned off before it takes hold. Each time you change the type, cycle power, then try and test the reader.
Iet me know if you need something more in depth, and I will try and find a TAC 20 nearby to assist.