Bunch of different story lines all being covered in the season 2 finale episode. Lets break them down one at a time.
The "case" for this episode is a Cheyenne man that left a suicide tape talking about time traveling to cleanse his sins. It somehow involves killing his body to get a new one or something and there is no body at the scene. More importantly, Branch has figured out that this is the guy who flattened Cady's tire which ultimately resulted in her being hit by a car. Shady Jacob Nighthorse is also connected to this guy and Branch thinks he asked the guy to mess up Cady's tire. Jacob says the guy admitted to puncturing Cady's tire because he thought he was helping Jacob & Branch but that Jacob had never asked him to do it. He also says he found the guy's body and burned it so he could be with his ancestors. Branch wants a sample of the ashes to confirm it really is him and Jacob says its sacred ground not to be disturbed. Branch sneaks onto the Res to collect a sample anyway and gets shot. The episode ends with Walt carrying a bleeding Branch over his shoulder and Branch having said he was shot by a dead man.
The Denver PD also show up with a bunch of search warrants for Walt & Henry's homes and offices as part of the investigation of the death of the meth-head that killed Walt's wife. Henry reveals to Walt that it wasn't him OR Walt that killed Walt's wife's murderer. It was Hector, the Cheyenne mercenary. Hector says he beat the man like he has never beaten anyone, but he didn't kill him. So now they are all wondering who DID kill him. Cady mentions something that makes Walt rethink a detail of his wife's case and now he thinks the meth head was paid to kill his wife and then that person killed the meth-head. He tells the Denver cop but the Denver cop says he has enough evidence to arrest Henry and has. Walt flips out and turns over all the furniture in his office.
The episode starts with Ed Gorski, Vic's stalker, having been beaten within an inch of his life. Ferg finds that he has called Vic 30+ times and thinks they are having an affair and Vic's husband probably beat Ed. Walt talks to Gorski and finds out he never saw his attacker because he was hit in the back of the head but Ed thinks Walt did it. He also thinks Walt & Vic are sleeping together. Vic finds out about Walt having threatened Gorski and goes to the hospital to try to talk Ed out of pointing the finger at Walt.
He tells her "I want you to feel what it's like to have everything you care about taken away. I want you to hurt, Vic." She says she thinks she can make that happen and gives him an envelope that we find out contains a blank police report that she wants him to fill out saying she beat him. She tells Walt what she has done but Walt doesn't believe she really beat Ed and says if he files that report, Vic won't have a job anymore, there or anywhere.
Vic takes the news of her likely unemployment pretty calmly and goes home to be domestic. Her husband gets home from being out of town on work and she tells him he should get used to her being home during the day. When she explains what is going on, at first he is protective and sweet but then he gets pissy and jealous when he hears its Gorski and when the phone rings he tells her to answer it because it might be another one of her ex boyfriends coming back in the picture.
The phone call is actually from the hospital and she goes only to find out Ed is gone and he left her the envelope. Inside it is the police report with nothing written on it but "See you soon!" CREEEPY!
The last we see of Vic she is waiting with a gun on her darkened stairs with a dangerous look on her face.