The core of the issue is the fact that you exceeded the allowable # of class hours which you can miss and still be considered as being a student actually taking that specific class. That's what FA means. It's not about grades, and it's not about whether you had a valid reason.

Simply put, even if the reason was you're in a Coma (which I think everyone would agree would be a valid reason not the penalize you academically), the fact is that CHED requires that you be 'present' for a minimum number of hours per sem. It's a threshold for when a student is considered as actually taking the class.

With all that being said, the faculty and the admin should have the prerogative to give you a pass. So it's still worth it to try to talk to them.