Alaba has been linked with Liverpool in recent days ahead of the January market.
Flick said, "Alaba is doing a good job.
"I feel he's the same as last season, very focused, loud on the pitch, one of the players who leads our defence. For me, there's no difference between now and last season.
"I'm not concerning myself with [his future] at all right now.
"I really hope that he signs a new deal with Bayern because I think he knows what the current situation is in Munich.
"We have a lot of fun, it is a good atmosphere in the team and we play successful football. It is a club that belongs among the best in the world.
"The conditions are top for every player right now and I think he'll think twice about changing that.
"He will think about it, I am sure, but we will have to respect any decision. I hope he will remain with us but ultimately it is his decision."