brown discharge for a week,pregnant??

Well your hormones are getting used to your new pills. And this can be a side affect of this. So you might be experiencing this for a month or two. It is good that your partner uses the condom during this period, because your hormones are not perfectly fine.

Have you been engaging in any activities that might indicate that you are pregnant? Have you had unsafe sex in the meantime? I agree with what dark_red posted. The new pills are what is causing your body to go through some tumultuous stuff when you switch birth controls. Have you tried any pregnancy tests yet? Keep us posted as to how things go for you. And thanks for posting.