It lies under the hill of Golgotha, according to Ron Wyatt, a hobbiest archaeologist. Wyatt made claims of finding other Biblical artifacts, such as Noah's ark. He said that the ark of the covenant was positioned there, so that Christ's blood could drip on it through the fissure in the rock during the crucifixion. He even claims to have scraped dried blood off the ark casing and to have subjected it to DNA testing. He said the lab reported the fascinating result of half the chromosomes normal humans have, consistent with having only one human parent (Mary). My problem with this is, how did Wyatt avoid being struck dead, as Uzzah was when he touched the ark, when he scraped this blood sample off the ark? That does beg some questions, does it not?
It is said by some to reside in heaven, based upon Revelation 11:19 “And the temple of God was opened in heaven, and there was seen in his temple the ark of his testament: and there were lightnings, and voices, and thunderings, and an earthquake, and great hail.” This can be dismissed right away, as there has always been an ark in heaven, long before the replica of it was made for the tabernacle. We know this because God told Moses that he was making the tabernacle and its accoutrements as replicas of the heavenly temple, and that is why the measurements and arrangement of all things had to be so precise. Exodus 25:9, 40 “According to all that I shew thee, after the pattern of the tabernacle, and the pattern of all the instruments thereof, even so shall ye make it........And look that thou make them after their pattern, which was shewed thee in the mount.” Hebrews 8:5 “Who serve unto the example and shadow of heavenly things, as Moses was admonished of God when he was about to make the tabernacle: for, See, saith he, that thou make all things according to the pattern shewed to thee in the mount.”
Lastly the movie Indiana Jones and Raiders of the Lost Ark along with the television show Warehouse 13 has left us with the theory that the ark is boxed up in an unmarked crate and stored along with other missing artifacts of importance in an undesignated (or possibly the basement of the Smithsonian) government location where it can be protected from either being used for nefarious purposes by unsavory characters, or possibly proving the Bible true. One can almost believe this is the most logical possibility, knowing our government.
The truth of the matter is, nobody knows what happened to it except God. Is it necessary that it make a reappearance for the time of Daniel's 70th week? Not really. We know that it was not in the Second Temple, and that did not stop them from sacrificing. We know that God left the Temple and will not return to it until He returns in the person of Jesus Christ or Yeshua ha Mashiach, so He does not need the mercy seat as a throne. We know that Christ was the ultimate sacrifice and that the Yom Kippur sacrifice or atonement has been permanently made once and for all. So the ark would seem to be unnecessary for the Tribulation Temple, for lack of a better title. The only real prophecies that say it will make a reappearance come not from the Bible, but from the prophecies of Islam. These prophecies come from Satan, so does he plan to bring it back? Or at least a facsimile of it? Possibly.
The question then would seem to be, is it a necessary part of the Millennial Temple, for if it is, then one might think that it is necessary that it makes its reappearance. For that answer we can turn to the Scriptures.