Careful. Careful. Careful. 3 minutes before kick off is when everything stops happening to your team. Not tactic changes, no treatments, no morale boosters, no rests!!!
So if your watch shows a slightly different time to the in game countdown condition gain timer you can easily get into the situation above.
Any 6% gains in condition that are due to happen during the 3 minutes before your match or during the duration of your match will be added on once the game has finished.