16 year old Joan Girardi is approached by someone claiming to be God. He gives her a mission, get a job. Will Girardi, Joan's dad and new chief of police for Arcadia, is trying to solve the case of a serial killer.

God encourages Joan to learn how to play chess; Will must work with a psychic on a missing toddler case; Helen hopes a miracle will enable Kevin to walk again.

Joan baby-sits for a 6-year-old boy who is obsessed with death; officers assault a black man at a gas station.

At Helen's insistance, she and Will take a getaway to a spa, but all does not go well when Will cannot forget about his job. And with the parents away, the kids are up to a little recreation of their own; Kevin and his boss, Rebecca, find it hard to ignore their mutual attraction; Joan, as she is trying to sort out her feelings for Adam, is instructed by God to throw a party while her parents are way; Luke helps Joan pull off a successful party.

When the hospitalized Joan is diagnosed with Lyme disease, she begins to question if she's been seeing God or merely experiencing the hallucinations that can be symptomatic of her condition...

Upon hearing that Joan may have been suffering from the symptoms of Lyme Disease for months, a somewhat relieved Will and Helen believe this news may explain Joan's mood swings and atypical behavior, while a concerned Adam wonders if Joan will be different upon her recovery. Meanwhile, the hospitalized Joan experiences a crisis of faith -- and considers revealing to someone close to her that she's been talking to God. In separate circumstances, Helen and Will begin to rethink their belief systems after, respectively, experiencing spiritual dreams and miraculous events.

After a summer of therapy and with school resuming Joan tries to return to a ""normal"" life even as she ignores God, who keeps reappearing; Will is sued for emotional distress by Andy Baker, whose drunk driving caused the accident that paralyzed Kevin; Luke and Grace try to adjust to their relationship.

As the Girardis are deposed for the lawsuit against them regarding the car accident that disabled Kevin, they look back on their memories of that horrible day.

God tells Joan to do an extra credit English assignment on romance poets, which causes her to question her own love life.

God tells Joan that the last two years were a spiritual boot camp for her greatest challenge yet, pitting her against a man with a sinister agenda.