For 3.5 miles I wouldn't bother with a lot of special equipment. To deal with the shoe issue I would wear regular shoes and maybe get some cheap weather proof shoe covers and put an additional mudflap on your front fender. In regard to jackets etc I usually wear a good windproof shell (with ventilation) a fleecy layer (if it gets much below 40) and a wicking sport shirt. None of this stuff (save the shoe covers) is cycling specific and I have picked up most of it at a department store or a work wear place.