I'm glad you brought this up. In recent weeks i've been thinking about this every time a penalty comes up in one of my games then i forget to mention it in here. When i was a kid, I used to HATE this penalty system because of the simple reason why i love these games now. It's algorithm based.
Just like the algorithm is infused with the stats of your players to create this juxtaposition of individuality and a sense of unpredictability in open play by using limited technology to it's full potential, Konami understood there was a dilemma "How can we faithfully recreate the drama of penalty kicks in our game, With our limitations?" They applied this genius to the penalty kick system - The user gives the instructions; The player carries out the action. It's a simple formula that crafts that circle of mental challenge, Form and stat influenced game play that works so well.
I used to hate the lack of control i had over my penalty kicks when i was a kid but as an adult i understand what their vision was, It's a game interpreting reality - Now they're games that try to replicate reality & by giving the user too much cognitive control, Ironically it causes a strangely artificial replication of football. It's less about virtual players and recreating their nuances and what their capable of in certain situations and now it's about the human and his skill with the controller overriding that, Breaking the immersion in a way.
Notice how on PS2 PES there's not way you can ping pong the ball from the back line all the way up to attack with first time passes? It's literally impossible, Because the ball physics and context of your players position was correct all along - More realistic than it ever has been. The ball the simply runs out of momentum, It's spin betrays you and it;s just simply very difficult to pass the ball first time in a direction your not facing with out controlling and resetting yourself.
Nowadays the balls physics seem to just reset every time it's "possessed" by a new player, It almost resembles a hockey puck more than a football if anything which is why you see these videos of these guys patting themselves on the back like their some kind of football genius or like they've accomplished something significant that really anyone with could hand eye coordination and twitch reflexes can do on PA3. You're not playing or trying to recreate football, You're playing with a pinball machine in a stadium.