Check other mods you might have maybe? If you're using Mod Type pack, then either make sure it loads last (is on top of mod's list), or rename it to something like "aaaaa.pack", as CA Mod manager loads mods alphabetically it seems.
As for masks- there were few icons without them- like some elephants f.ex. so there supposed to be less of those and also I've left some additional icons in the icon folder - variations I didn't wanted to throw away - those are without color masks obviously and game doesn't use them.
Thanks.
Agents are not a priority for me, but maybe check out this mod (Agent Cards Redone):
http://steamcommunity.com/sharedfile.../?id=219477017
might help