I think she's referring to the command seals, which she could use to give Madoka three orders she cannot disobey...
... Wait, Homura's command seal orders are slightly different from each other:
As often as 3 times for Madoka... As often as 3 times to Madoka... As often as 3 times with Madoka...
I wonder what's the significance of the word swaps.
Make a contract with meI'll accept all your fate*grab*Hm!?
I feel like I'm being mistaken for something else...As many as 3 times for Madoka...
As many as 3 times to Madoka...
As many as 3 times with Madoka...