I just ran into this problem haha!
i was doing an upgrade for a client just now from 6.1.2.8 to 6.1.3.6
After that all the AP 93 went to air monitor... even if the rf profile said that they should be on ap mode, they got over 40 105s which they were all good.
I reviwed the config which there was nothing wrong witht it...
I then downgraded it to 6.1.3.5 and everything looks good....
Do you happen to have 6.1.3.6?
Im not on the site as its really far away from here and actually i cannot even console the APS to see if i get any clue of it.... But that looks more like a bug.
Ill use my demos Wireless controller on the office to look at this problem and if keep happening the same ill open a support case.... to see if this is a bug.
Cheers
Carlos