Two indentured servants who wish to marry find that the law states they must have the permission of their masters. Buena, who works in the de la Vega hacienda, is told she is free to marry, but her boyfriend, Romaldo, is not so fortunate. One of his co-workers also wants to marry Buena so he convinces their boss that Romaldo plans to run away after the ceremony.

Don Carlos Fernandez decides to draw Joe Crane into the open by laying claim to the mountain man's furs and burro. Diego tries to end the feud by offering to buy the goods, but Fernandez refuses.

When Captain Monastario arrests the fugitive Torres' wife and daughter, hoping to catch Zorro trying to rescue them, he instead catches Don Diego's chief vacquero Benito, who is in love with the daughter Elena.

The second season of Zorro opens with Don Diego and Bernardo visiting Monterey, California. They have been sent there by a group of Los Angeles investors to look over an import business. The visitors have barely arrived in town when two men burst into their room and demand the investors' money.

After the Verdugos return to Monterey, Anna Maria enters their home and discovers that her father is missing. Pablo, their former servant, tells her the old man is being held hostage and will be killed unless she hands over 45,000 pesos believed to be in the house.

Still hoping to strike it rich during his visit to Los Angeles, Estevan shows a great deal of interest in a young woman when he learns she comes from a wealthy family. Don Alejandro accuses Estevan of only being attracted to Margarita because of her money, but the suitor denies the charges, forcing Diego to dress as Zorro in an attempt to frighten Estevan away.

Thought to be hiding safely in the hills, fugitive Joe Crane instead has sneaked back into the pueblo hoping to recover his hunting rifle and the load of furs he gathered during the trapping season. He also wants to see Carlotta, the barmaid who accidentally started the fight between him and Don Carlos Fernandez.

Finding that Don Torres is in hiding at the Mission, Monastario forces the local Indians into hard labor until the Padre agrees to surrender the fugitive.

In order to help the escaped fugitive Torres elude Captain Monastario's surveillance of his home, Don Diego decides that he must propose marriage to Torres' daughter.

With his father Don Alejandro now charged with treason along with Don Torres, Zorro must see that the judge sent by the governor arrives to assure a fair trial.

Another agent sent by the Eagle arrives in the pueblo, this time smuggling jewelry to finance the conspiracy. Carlos Murietta, an Argentine who is contemptuous of the locals, particularly Sergeant Garcia, visits a tannery run by Jose Mordante. The two men discuss the disposition of the gems, including a famous piece known as "The Cross of the Andes", which were stolen from churches in Argentina.

Expecting another shipment of jewels, Murietta goes to inspect the tannery where they will be stored. There, he spots Pasqual, a peasant who lives there, and whips the old man until he leaves. The shipment arrives accompanied by Dolores Bastinado, recently arrived in the pueblo, who attracts the attention of Sergeant Garcia.

Before he returns home, Sergeant Garcia angers Theresa, a tamale vendor, when he tries to carry out the orders of the acting governor. Luis Rico has decided that all of the vendors must be removed from the plaza despite their objections, and Diego promises Theresa he will try to help.

Diego's uncle, Estevan de la Cruz, arrives in Los Angeles for an unannounced visit and surprises the de la Vegas when he tells them he plans to be their house guest. Furthermore, he expects them to give a lavish party to welcome him. All of this angers Don Alejandro, but to head off a family dispute, Diego convinces his father that Estevan will leave soon.

Anita is still hoping to find her father, but Sergeant Garcia has decided she is nothing but a liar and wants to send her back to Spain. Only Diego believes her story, and he tells her she needs to supply some proof of her father's existence.

When a jovial mountain man, Joe Crane, arrives in the pueblo, he is threatened with arrest for traveling in Spanish territory without official permission. Sergeant Garcia warns him to leave town but changes his mind when Crane buys him a few drinks in the tavern.

Sergeant Garcia returns from escorting Padre Simeon on a trip from San Diego and is surprised to find that almost everyone in Los Angeles has contracted the measles. The doctor has placed the entire pueblo under quarantine and restricted residents to their homes. Even the soldiers cannot leave the cuartel.

A Chinese boy escapes from a ship in San Pedro's harbor and tries to hide in Los Angeles. He is unable to seek help, for he speaks only his native language.

Learning that a group of disgruntled landowners plan to seize the cuartel and free the political prisoners, Captain Monastario sets a trap to capture them, including Zorro's father Don Alejandro.

Captain Monastario orders Sergeant Garcia to pretend to have been dishonorably discharged, so that the people of the village will take him into their confidence and reveal Zorro's whereabouts.

Sergeant Garcia and the other soldiers are amazed one morning when every musket seems to misfire. When they check their gunpowder, they realize it has been replaced with charcoal. A search of the cuartel reveals that all of the gunpowder has been stolen, leaving the post defenseless.

Determined to find the missing jewels, Diego and Bernardo visit a local padre in the hopes he can assist them in their quest, but the trip is to no avail. Later, when Carlos Murietta complains to Sergeant Garcia about the missing trunk he had stored at the tannery, Diego is convinced more than ever that the jewels were hidden by Mordante before his death.

The kidnappers send word that Anna Maria must meet them if she wants proof her father is still alive, but Diego warns her it is a trick. Romero argues that she must go, so she agrees to go with him, Garcia and Reyes.

Joaquin and several followers begin a series of raids against the Especials, which culminates with the beating of Capitan Briones. The soldier issues a death order for Joaquin and sends his men after Theresa, intending to force her to reveal his hiding place. She asks Diego to hide her, and with Garcia's assistance, he protects her from the searchers.

Capitan Briones escalates his campaign against Joaquin by ordering that a peon be whipped until he reveals the rebel's hiding place. Zorro uses his own whip to stop Briones, then frees the peon. Shortly after, the real governor returns and Rico explains that his harsh rule was only imposed to make the capital a well-run city. Rico then convinces the governor to offer the rebel a truce so he can explain his case, planning all the while to kill Joaquin as soon as the outlaw turns himself in.