Based on the description it sounds more like you want to adjust your result filter to only show results with a higher QoD (because PHP VTs on Linux usually have a low QoD):
By default, only results that were detected by VTs with a QoD of 70 % or higher are displayed. Results detected by a test with a lower QoD are prone to false positives. The filter can be adjusted to show results with a lower QoD (see Chapter 7.3.1).
@test_qweqwe It is very typical that version-based checks fail, because fixes are often backported (i.e., applied without updating the version number). A common method is to disable version information on the server (for example, expose_php=off)