With these considerations, he took up the design of embarking on the Santa Cruz, which the governor of Malacca was sending out for Sancian. But seeing that the entry of China could not be attempted by that way which he had proposed without great hazard, he would be the only priest who should expose himself to those dangers; and retaining with him only one brother of the Society, the Chinese, Antonio de Sainte Foy, and another young Indian, he sent Balthazar Jago, Edward Silvia, and Peter Alcaceva, to several employments; the first to the kingdom of Bungo, and the two others to Amanguchi.
During these passages, it happening that John Beyro came from the Moluccas, to desire some more assistance, for the farther propagation of the faith in those islands, Xavier received from him the comfortable news of the great spreading of Christianity, and sent him to Barzæus, with orders that more companions should be joined to him; and that he should be remanded thither with all expedition.
The Santa Cruz being now upon the point of setting sail, he retired into the church of our Lady of the Mount, to recommend his voyage to the protection of the blessed Virgin. He continued his devotions till the evening; and had also passed the night in prayer, if they had not come to give him notice that the ship had already weighed anchor.
The grand vicar, John Suarez, who bore him company to the ship, asked him by the way, if he had taken leave of the governor; adding, that if he failed in that point of ceremony, the weaker Christians might be scandalized; that it would be a proof of his resentment, and an occasion of public murmur. The saint, who was willing to shew by his example, how excommunicated persons ought to be treated, replied immediately, "Don Alvarez shall never see me in this life; I expect him at the judgment-seat of God, where he will have a great account to answer." Having walked on a little farther, he stopped at a church door, which was near the sea; and, in a transport of spirit, lifting up his eyes to heaven, he prayed aloud for the salvation of the unhappy Don Alvarez. Then he prostrated himself, and was silent for some time, praying from the bottom of his heart to God, with his face to the ground. Soon after he rose up with a vehement action, which had somewhat of a holy disdain in it; he took off his shoes, beat them one against another, and afterwards against a stone, saying, "that he would not bear away the dust of an accursed place." He then foretold, with circumstances at large, and more than formerly, the punishment which heaven had prepared for the governor of Malacca; and going on board, left the people, who had followed him thus far, astonished at his prophecies, and afflicted at his departure.
Immediately they set sail, and there were in the vessel above five hundred persons, counting in the passengers and servants. They were already forward on their voyage, when the wind fell on the sudden; and in a moment the waves were laid, and the face of the ocean grew so smooth, that the Santa Cruz stood still, and moved no more than if she had been at anchor. During this becalming, which lasted fourteen days together, their water failed them, and some died from the first want of it. They rowed on every side with their chalop, to make discovery of some coast where they might find fresh water. Being far at sea, they could discern nothing, but the island of Formosa, at least they believed it so to be. They endeavoured to gain the shore; but in seven days time, notwithstanding all their attempts, they could not reach it.
In the meantime, the ship was full of sick people, who were burnt up with a deadly thirst; and they had all perished, without hope of succour, if one of them, reflecting within himself, that Father Xavier had been always prevalent with God, had not hinted this notion to the rest; whereupon all of them coming on their knees before him, besought him, with more tears than words, to obtain from heaven either wind or water for them.
Xavier bade them address themselves to God in their own behalf; caused them to recite the litany on their knees, at the foot of a large crucifix; and then ordered them to retire, but to have confidence in Jesus Christ. He himself withdrew also into a chamber; from whence coming out some time after, he went down into the chalop with a little child, and having caused him to taste of the sea water, asked him whether it were fresh or salt? The child answering that it was salt, he commanded him to taste again, and the child told him that it was fresh. Then the Father, returning into the ship, ordered them to fill all their vessels; but some amongst them, being eager to drink, found the water salt. The saint made the sign of the cross over the vessels, and at the same moment the water, losing its natural saltness, became so good, that they all protested it was better than that of Bangar, of which the seamen make their ordinary provision, and which is esteemed the best water in all the Indies.
This miracle so struck some Saracen Arabs, who were transporting their whole families into China, that, throwing themselves at the feet of the holy man, they acknowledged the God of the Christians, and desired baptism. The faithful, on their side, admired Father Francis; and all of them, in a body, owned the preservation of their lives to him. But the Father told them, that it was to God, and not to such a sinner as he was, that they were obliged to pay their thanks. The greatest part of the mariners and passengers kept, out of devotion, some of this water, at the first as a testimony of the miracle, afterwards as a celestial remedy: for the water, being carried to the Indies, cured great numbers of sick people; and infusing some small quantity of it into any sort of drink, was sufficient to restore their health.
During the navigation, a child of five years old happened to fall into the sea; the vessel, which had a fore-wind, pursuing its course. The father of this child was not to be comforted, and his grief so overwhelmed him, that he kept in private for three days. He was a Mahometan, and the miracle of the water had not converted him. At length he appeared in public, but all in tears, and never ceasing to lament the loss of his only son. Xavier, who knew nothing of this misfortune, asked him the reason of his sorrow? Having learnt it, he stood recollected in himself a little time, and then said, "Supposing that God should restore your son to you, would you promise me to believe in Jesus Christ, and to become a sincere Christian?" The infidel promised him; and three days after this, before sun-rising, they saw the child upon the hatches. The child knew not what had become of him for those six days, and only remembered his falling into the sea, not being able to give any account how he returned into the ship. His father was ready to die with joy when he received him; and Xavier had no need of putting him in mind of his engagement: he came of his own accord, accompanied by his wife, his son, and his servant; all of them were baptized, and the child was named Francis.
Those of the vessel having been witnesses of these two miracles, spoke of them to the inhabitants of an isle called Cincheo, by which they passed, and which was a place of great traffic, full of merchants from several parts. The desire of seeing so admirable a man, caused about sixty persons, some Ethiopians, other Indians, all Idolaters or Mahometans, to come into the ship: Xavier took the occasion, and preached the gospel to them; withal, instructing them in the holy practices of Christianity. He had no sooner ended his exhortation, than they acknowledged Jesus Christ, and received baptism.