The editor-in-chief is John Weeks, who succeeded the founding editor, Kim A. Jobst.

[8] In 2005 the BBC used a report published by the journal as the basis of a story claiming that homeopathy was effective for some patients.

[9] The article contradicted the findings of a study that had recently appeared in The Lancet, reporting that homeopathy was ineffective.

[9] The methodology of the article in the Journal of Alternative and Complementary Medicine was criticized by pharmacologist David Colquhoun on his blog, saying that its questionnaire-based approach was "not really research at all" and that the published conclusion drawn from it was "quite ludicrous".

[10] Quackwatch has included the journal on its list of "nonrecommended periodicals", characterizing it as "fundamentally flawed".