Does it count as APFT failure if I fall out for a torn meniscus?

Well....if you want to go by the black and white of the standards, then yea. However, anyone with a brain and common sense wouldn't (or shouldn't) flag you for an injury occurring during the APFT as long as there is medical documentation to back it up. I personally would not Flag you.

first of all, ouch!!! I would think that it would not count since you got injured during the run. sounds like you still finished. just over your time. better than not attempting to complete. best of luck in your recuperation and rehab

FM 7-22
A-37. Soldiers who fail to achieve the minimum passing score for their age and gender on any event are considered test failures. If a Soldier is ill or becomes injured during the APFT and fails to achieve the minimum passing score for their age and gender on any event, he is considered a test failure.

AR 600-8-2
Chapter 2-3
b. “Army Physical Fitness Test failure” (Flag code J). Initiate a Flag when a Soldier fails a record APFT or when, through the Soldier’s fault as determined by the commander, the Soldier fails to take the APFT within the time prescribed by existing regulations, or when directed by the commanding officer (as provided for in AR 350–1). A Flag is not required for a Soldier who has a permanent or temporary profile that precludes taking the APFT or is unable to undergo an APFT because of conditions beyond the Soldier’s control (as determined by the commander). Soldiers with a profile effective after the APFT will remain flagged until a record APFT is passed. A Flag is not required when the commander determines the Soldier cannot be administered an alternate APFT because of conditions beyond the Soldier’s control. Soldiers who become pregnant after being flagged for failing an APFT (as determined by a physician) will remain flagged until successfully passing an APFT. Remove the Flag (code E) on date of compliance. If, as determined by her primary care provider, the Soldier was pregnant at the time of APFT failure, the commander will immediately remove the Flag (code Z).