bPermissions conflicting with McMyAdmin?

Hi,
Been getting this problem since I started using McMyAdmin, my whole permissions is set up 100% fine but an error has appeared when I used McMyAdmin. Before when I played all I done was /promote /demote to change ranks but when I do this now it doesn't do a thing, it appears that I have changed rank but when I speak my prefixes aren't there. I am currently trying to make it a global ranking system but what I think is happening is the server is using the default world as the groups file instead of the ones in the main folder. Literally tried everything and nothing has worked and the only thing I can really narrow it down to is McMyAdmin, as far as I know it can't export multiworld via bPermissions, nothing else. Would really appreciate help here, as I have spent hours trying to solve this and nothing has worked.
Here is a few pictures: http://puu.sh/3S5kR.png http://puu.sh/3S4OR.png

Ok, I changed the priority level from my Default group from 2 to 1, and reloaded and I started with the the Member tag (my prefix), so tried to promote myself and then all the tags disappear. Whats weird though is I used to have the group "noob" and deleted it but it still appears here: http://puu.sh/3Sb1t.png
Also that isn't my default tracks, it should go member/mod/admin/head not in that order.

This is a problem with permissions, just realized, but I am not convinced it is anything to do with the programming for it as it worked 100% fine before I removed a group. Could really do with some help.

EDIT by Moderator: merged posts, please use the edit button instead of double posting.