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    So may be your question is just php ignores .user.ini? Commented Mar 17 at 19:54
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    And which actual sapi it is? FPM or FastCGI? Commented Mar 17 at 20:59
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    So it's your answer. php-fpm doesn't support user ini Commented Mar 18 at 6:10
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    What makes you think that PHP uses output buffering? What does ob_get_level() return? Commented Mar 18 at 7:51
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    Which module are you using? It is possible that you have set different buffering options for different directories/locations in Apache. Additionally, did you directly access the PHP file in the directory or did you access it through another PHP file? And try print_r(ob_get_status());, it should be empty if php's buffering is off. Commented Mar 19 at 7:32