Most Biblical references relating to Master Chief are not quite as obvious or solid as the Covenant references, but there are still a few that seem likely. Two examples come from The Book of Revelation, formally called The Revelation of Saint John the Divine. The first is from Revelation 1:17-18 (the 1:17 is thought to be linked to Master Chief's Spartan Tag, John-117).
17 And when I saw him, I fell at his feet as dead. And he laid his right hand upon me, saying unto me, Fear not; I am the first and the last:
18 I am he that liveth, and was dead; and, behold, I am alive for evermore, Amen; and have the keys of hell and of death.
The 'first and the last' comment may be referencing that the Master Chief was the first Spartan to be studied by Dr. Halsey. This coupled with the fact that the game manuals continuously refer to the Master Chief as the last Spartan (as all other SPARTAN-IIs were killed or taken out of action), makes him the first and the last. The comment 'I am he that liveth and was dead; and, behold, I am alive for evermore' may refer to Master Chief being one of the 33 Spartans that survived the SPARTAN II project. Also 'and have the keys of hell and of death' most likely refers to the Indices to the Halos destructive power. It could also be a reference to Captain Keyes neural implants used to destroy the Pillar of Autumn, and Installation 04, in the first game although this is less likely. Another important thing to note is the fact that the passage states that "I am alive for evermore". In the novels it is often said that a Spartan never dies and during the novels and games Master Chief repeatedly survives many near-death situations. It has also been speculated that 'And when I saw him, I fell at his feet as dead. And he laid his right hand upon me, saying unto me, Fear not; I am the first and the last:' could refer to the end cutscene of the first level of Halo: Combat Evolved. In this scene, the Master Chief puts his right hand on a Marine that is at his feet, and saving him by putting him in the Lifeboat.
The next quote is from Revelation 11:7, another reference to John 117. This verse was also part of the battle of High Charity reference, showing it may have some importance to Bungie and the Halo story.
7 And when they shall have finished their testimony, the beast that ascendeth out of the bottomless pit shall make war against them, and shall overcome them, and kill them.
Prior to the release of Halo 3, we witnessed TV spots in which towards the end would display the word "BELIEVE". This next one, read from St. John 1:7 references to the Master Chief inspiring hope in those around him in the fight for humanity:
7 The same came for a witness, to bear witness of the Light, that all men through him might believe.
1 John 1:7 fits the name better, and goes like this:
7 But if we walk in the light, as he is in the light, we have fellowship one with another, and the blood of Jesus Christ his Son cleanseth us from all sin.
However, 1 John 2:17 fits the story better:
17 And the world passeth away, and the lust thereof: but he that doeth the will of God abideth for ever.
These are less likely to be references:
7 Then after that saith he to his disciples, Let us go into Judaea again. —John 11:7
17 For the law was given by Moses, but grace and truth came by Jesus Christ. —John 1:17
The second of these could relate to the Ark, because the Ark of the Covenant contained the laws given to Moses by God, but this is a stretch.
Additionally, his name is itself a reference to religion, being derived from Johannes, which was the Latin form of Ioannes, itself derived from the Hebrew Yochanan, meaning "Yahweh is gracious." Yahweh is the Hebrew name for God[1].
Probably the most obvious biblical connection to Master Chief is that John I became the seventh bishop of Jerusalem in 117 A.D.
When looking at the Halo storyline very direct parallels can be drawn between Master Chief and Jesus. The concept that the Chief is seen as a savior and the one man who can vanquish evil (the Flood and the Covenant) is reflective of this.
More evidence of this occurs at the end of Halo 3. When Master Chief is listed MIA, he disappears from humanity, much like how Jesus died on the cross. The line "Wake me when you need me." is also another reference to Jesus in that he will return someday, most likely when humanity is suffering again. After Chief had separated, during the ending video on legendary, Chief and Cortana say to each other "It's finished" which seems to refer to John 19:30
"30 When Jesus therefore had received the vinegar, he said, It is finished: and he bowed his head, and gave up the ghost(or Holy Spirit)."
His cryotube may be compared to the tomb in which Christ was buried.
