I completely understand that logic, but the only way a player doesn't get to play 48 minutes is if he is either injured or fouls out.
Not really true -- your player can be and often does get subbed if he gets too tired.
Both of these scenarios can be accounted for by the actual game simulation. I can see why having blow-out scores can negatively effect the standings (hence to 25-0 score), but I think transferring the actually minutes played might be more appropriate for not penalizing the team that actually showed up to play.
No-one is being penalized. You can get any single minute in the game assigned to a player, if you order your lineup correctly. You're somehow implying that getting 48 minutes at one position is some sort of a reasonable expectation for a game -- it is not.
Anyways... I can put this in the suggestions forum. I was initially just empathizing with the original poster.
You could, and it has been put in that forums before -- I'm just relaying what the response was from the BB team.
"I don't know half of you half as well as I should like; and I like less than half of you half as well as you deserve."