Check your tires regularly for cuts and foreign objects. Tires with thick rubber or knobbies work well as flat prevention. Tire liners present an additional layer of protection but make sure you do your part with daily inspections. Transporting your clothing, without getting them wet, can be a challenge to owners of porous panniers. Waterproof panniers are available but they are expensive.
Most cyclists use plastic bags inside their panniers.
Don't squish your clothing down, they get wrinkled. Better yet, take them to work on non-cycling days. At work, hang up your bicycle clothing in a warm room to let them dry. Your clothing needs air circulation to dry, so don't put them in a closet. With the aid of a fan, your clothing will quickly and without odour.