Donna's death has the club divided, with Clay setting up a new gun deal with the IRA. Charming and SAMCRO 's hold on the city is threatened after Ethan Zobelle a sophisticated separatist opens a tobacco shop. Zobelle and his less-sophisticated associate are determined to take SAMCRO down due to their black and Latino bikers.

After Gemma experiences something horrible she can't tell Jax and Clay. A rival porn producer comes to try and put Luanne out of business and Clay doesn't like Jax's decision making.

Zobelle comes up with a problem that Hale can solve to frustrate SAMCRO. Meanwhile, Gemma being raped is really affecting her relationship with Clay and the fact that Jax is involved with Luanne's porn business is bothering Tara. Clay decides to give Bobby the responsibility of running the business side of Luanne's.

Tensions between Jax and Clay escalate when they disagree over strategy for rescuing Tig after he's captured by bounty hunters on a gun-running mission. Back in Charming, Gemma is rattled by a graphic reminder of her attack, and she sets out to do something about it.

While Jax and Clay lock horns (and line up support) over how to deal with Zobelle, Tara finds herself ensnared in Gemma's emotional struggle in the aftermath of her attack. Meanwhile, SAMCRO gets help from an unlikely source.

Zoebelle incites Clay, who plans a course of retaliation, causing Jax to look to an unlikely source to keep the club from being destroyed. Tara learns from Gemma how an old lady handles anger.

Since The League has SAMCRO members behind bars, the club must make new alliances in prison to survive. Alcohol, Tobacco and Firearms Agent Stahl uses this imprisonment to test Jax and Clay's relationship.

Extreme measures are taken by SAMCRO to get a hold of weapons for a customer. A theft at Caracara Studios means revenge after one diva is put at risk. Tara's professional and personal lives begin to collide.

When SAMCRO's adult-film business becomes a hindrance to the club, Clay seizes the opportunity to revive the gun-running cartel. As Jax and Clay continue to clash over club activities, their relationship reaches a new level of antagonism.

While Opie seeks both revenge and reconciliation, Chibs makes a secret deal with Agent Stahl (Ally Walker) to protect his wife and daughter.

Jax and Clay keep SAMCRO focused on their impending showdown with Zobelle's group; thanks to Gemma, Tara improves her job security at the hospital; Weston finally discovers his boss's intentions in Charming.

The second season ends with SAMCRO trying to get rid of Ethan Zobelle (Adam Arkin) and his cohorts once and for all.