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Textual critics are now debating how to reconcile the earlier view of the Septuagint as 'careless' with content from the Dead Sea Scrolls at Qumran, scrolls discovered at Wadi Murabba'at, Nahal Hever, and those discovered at Masada. These scrolls are 1000–1300 years older than the Leningrad text, dated to 1008 CE, which forms the basis of the Masoretic text. The scrolls have confirmed much of the Masoretic text, but they have also differed from it, and many of those differences agree with the Septuagint, the Samaritan Pentateuch or the Greek Old Testament instead.

Copies of some texts later declared apocryphal are also among the Qumran texts. Ancient manuscripts of the book of Sirach, the "Psalms of Joshua", Tobit, and the Epistle of Jeremiah are now known to have existed in a Hebrew version. The Septuagint version of some biblical books, such as the Book of Daniel and Book of Esther, are longer than those in the Jewish canon. In the Septuagint, Jeremiah is shorter than in the Masoretic text, but a shortened Hebrew Jeremiah has been found at Qumran in cave 4. The scrolls of Isaiah, Exodus, Jeremiah, Daniel and Samuel exhibit striking and important textual variants from the Masoretic text. The Septuagint is now seen as a careful translation of a different Hebrew form or recension (revised addition of the text) of certain books, but debate on how best to characterize these varied texts is ongoing.