Not 100% if this is the issue you're having but I'll take a stab at it...

In your "Control" keymaps is where you'll find the keymap which toggles your keys on and off. If you're making more sets of FTL DPS keys they'll have to be toggled off or on depending on which character set you're playing.
I had made these keymaps for example:
Code:
FTL DPS Keys [Paladins]
FTL DPS Keys [Death Knights]
So now I need to alter my toggle keymap setup from a two step to a three step keymap.
Step 1
Code:
FTL DPS Keys [Paladins] ----> On
FTL DPS Keys [Death Knights] ----> Off
Step 2
Code:
FTL DPS Keys [Paladins] ----> Off
FTL DPS Keys [Death Knights] ----> On
Step 3 [So I can use the keyboard to type]
Code:
FTL DPS Keys [Paladins] ----> Off
FTL DPS Keys [Death Knights] ----> Off
Of course the more teams you make the bigger this keymap will become and might become a pain to continually cycle through 8 teams just so you can type on the keyboard once in a while.

I'm sure Lax will come in here with guns a blazin' like he always does and resolve this issue with a sentence or two.