Is it okay to question God? from Compelling Truth
To question God is not wrong. This is clear due to occasions in the Bible in which people asked God questions and He was not offended or angered. For example, the book of Habakkuk largely consists of a question and answer format in which the prophet Habakkuk asked God questions regarding His toleration of wrong and God answered with future predictions of His justice. For example, Habakkuk 1:2 begins by asking, “O LORD, how long shall I cry for help, and you will not hear?” The Lord answered with prophecies related to how He would help in the future.
The Psalms offer another important section of Scripture that ask God many questions. These lyrics often seek wisdom or justice. While answers are not always provided, there is no criticism given in Scripture regarding such questions.
The book of Ecclesiastes is yet another book in which the author (traditionally Solomon) asked difficult questions about life and sought to find the answers to them through various methods. In the end, the conclusion is given to “Remember also your Creator in the days of your youth” (Ecclesiastes 12:1) and to “Fear God and keep his commandments, for this is the whole duty of man” (Ecclesiastes 12:13).
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Even the heavenly vision of Revelation 6 offers insight into God’s attitude toward questions. Those who had been slain for their faith ask, “O Sovereign Lord, holy and true, how long before you will judge and avenge our blood on those who dwell on the earth?” (Revelation 6:10). God responds with a call to patiently wait until the proper time.
There is, however, a difference between sincerely asking God questions and accusing God of wrongdoing. Such an attitude would be wrong, as God is perfect and never sins or lies (Hebrews 6:18). He is not tempted, nor does He tempt others (James 1:13).