The season was spent by Pisani in constantly cruising in search of another Genoese fleet under Luciano Doria, and in making a series of brilliant attacks on the towns of the Hungarian and Greek coasts. He was also sent to escort Valentina Visconti to her husband, Peter II. of Cyprus; and in the autumn, in opposition to his most earnest wishes, he was commanded to remain at that island for the winter.

Pisani's lieutenant was Carlo Zeno, who came of a family noted for its bravery. He was ten years younger than Pisani, and had passed his life in adventures worthy of a knight of fame; indeed, he had been called "Zeno the Unconquered." He also had scoured the sea during the summer of 1378, in search of the enemies of the Republic, and had performed feats of daring and skill. Like Pisani, he often acted on an impulse which savored of recklessness, while it was but bravery. Zeno was also a scholar, and had been eminent in his college at Padua; but his besetting sin of gambling obliged him to fly, and his after life had been one long romance, until he entered the service of Venice in 1377.

Pisani's forebodings for the winter at Cyprus were more than realized; and in the spring of 1379, out of nineteen galleys six only were fit for service, and scarcely men enough to man these were still alive. But his personal friends in Venice built and equipped twelve other ships, so that his fleet numbered eighteen sail. His enemies were busy at Venice; but in spite of them and in spite of his absence, he was confirmed in his office, and Carlo Zeno and Michele Steno were made his lieutenants.

During the spring Pisani diligently prosecuted his search for the Genoese fleet without success; but on the 7th of May, 1379, when he was returning from Brindisi with a large convoy of grain, Doria, with twenty-five sail, including two brigantines, suddenly presented himself in the roads of Pola. Pisani had many good reasons for not wishing to give battle to the Genoese at this time: his ships were fewer than Doria's; there was much sickness among his men; Zeno was absent on another expedition, and he thought it wiser to act on the defensive only. But the council of civilians who were with him were unanimous in favor of an engagement, and even hinted at cowardice in Pisani, whose rage at this injustice was almost uncontrollable, and it was with great difficulty that he so far governed himself as not to attack his accusers.

He bade his captains prepare for battle, and soon all was in readiness. Pisani, in full armor, standing on the stern deck addressed his men: "Remember, my brethren, that those who now face you are the same whom you have vanquished with so much glory on the Roman shore. Let not the name of Luciano Doria terrify you; it is not the names of commanders that will decide the conflict, but Venetian hearts and Venetian hands!" He then cried out, "He that loves Saint Mark, let him follow me!" and this battle-cry was echoed from ship to ship.

At first the day was propitious to the Venetians, who fought with even more than their usual intrepidity, and victory seemed to be theirs, when the Genoese vessels began a retreat and Pisani followed in pursuit. After several miles had thus been made, and the Venetian ships were separated from each other, by a skilful manoeuvre Doria turned about, and renewing the combat with great vigor and ferocity, gained a complete victory.

From seven to eight hundred Venetians perished; twenty-four hundred were made prisoners, and but six galleys remained afloat. Near the end of the conflict Doria had raised his visor, exclaiming, "The foe are already vanquished; the battle is all but ours," when Donato Zeno plunged his lance into the throat of the victorious admiral, killing him instantly.

Venice was filled with consternation and surprise when this dreadful news was known. Her only fleet was destroyed; the enemy was approaching the lagoons, and Carlo Zeno was far away. A terrible cry was raised against Pisani; his enemies could now make him pay for his popularity and greatness and for some of his outbursts of temper from which they had suffered, and they demanded the extreme penally. He was brought to Venice in fetters, and was not permitted to speak a word in self-defence. In July it was moved in the Senate that he be beheaded between the Columns; but with a shudder, this motion was denied, and he was sentenced to prison for six months and to exclusion from all offices for five years.