2 In this prayer, therefore, Jesus may seem to have omitted praying for some of His own, unless we carefully examine His words in the prayer itself. For if He prayed first for those, as we have already shown, who were then with Him, and afterwards for those also who should believe in Him through their word, it may be said that He prayed not for those who were neither with Him when He so spoke, nor afterwards believed through their word, but had done so at some previous time either of themselves, or in some other supposable manner.
For was Nathanael with Him at that time? Was Joseph of Arimathea, who begged His body from Pilate, and of whom this same evangelist John testifies that he was already His disciple? Were His mother, Mary, and other women who, we know from the Gospel, had been prior to that time His disciples? Were those with Him then, of whom this evangelist John frequently says, “Many believed on Him”? For whence came the multitude of those who, with branches of trees, partly preceded and partly followed Him as He sat on the ass, saying, “Blessed is He that comes in the name of the Lord;” and along with them the children of whom He Himself declared that the prophecy had been uttered, “Out of the mouth of babes and of sucklings You have perfected praise”? Whence the five hundred brethren, to all of whom at once He would not have appeared after His resurrection had they not previously believed on Him?
Whence that hundred and nine who, with the eleven, were a hundred and twenty, when, being assembled together after His ascension, they waited and received the promise of the Holy Spirit? Whence came all these, save from those of Whom it was said, “Many believed on Him”? For them, therefore, the Saviour did not at this time pray, seeing it was for those He prayed who were then with Him, and for others not who had already, but who were yet to believe in Him through their word. But these were certainly not with Him on that occasion, and had already believed on Him at some previous period.
I say nothing of the aged Simeon, who believed on Him when an infant; of Anna the prophetess; of Zachariah and Elisabeth, who prophesied of Him before He was born of the Virgin; of their son John, His forerunner, the friend of the Bridegroom, who both recognized Him in the Holy Spirit, and preached Him in His absence, and pointed Him out when He was present to the recognition of others; — I say nothing of these, as it might be replied that He ought not to have prayed for such when dead, who had gone hence with their great merits, and having met with a welcome reception were now at rest; for a similar answer is also given in connection with the righteous of olden time.
For which of them could have been saved from the damnation awaiting the whole mass of perdition, which has been caused by one man, had he not believed, through the revelation of the Spirit, in the one Mediator between God and men as yet to come in the flesh? But behooved He to pray for the apostles, and not to pray for so many who were still alive, but were not then with Him, and had already at some previous period been brought to the faith? Who is there that would say so?
Source: Tractates on the Gospel of John (New Advent)