Hi nbwx2,
The red and brown marks you are noticing are most likely from post inflammatory hyperpigmentation. Basically, the inflammation from your acne left a mark behind. The good news is that color changes are generally not permanent, but they do take time to fade.
Things that can be helpful: sunscreen (non comedogenic, formulated for the face), bleaching creams, and lasers that target blood vessels (such as the pulsed dye laser), or an intense light device such as the IPL and BBL. Most will recommend that you do not do laser procedures until you are post therapy for at least 6 months, although that opinion is slowly changing.
Having said all of that, you should definitely discuss this with the person who is prescribing your medications.
Best wishes,
Dr. Tina Kinsley, MD, FAAD