Hughes's acquisition of Mame Biram Diouf has prompted speculation over Crouch's future, with the coach himself admitting that the 26-year-old's arrival will see some leave the club.
However, the Welshman insists that he was not alluding to the former England international, claiming that the "exceptional" striker still has a big role to play at the Britannia Stadium.
"Peter did very well last year," Hughes told Sky Sports News. "Obviously people picked up on something I said a couple of weeks back about some players arriving so some players will feel that they have to leave.
"Peter isn't one of those I hope because he was exceptional last season, did really well for me.
"He's a great asset on and off the field so we don't want Peter to leave. He's got a big part to play."
The 33-year-old, who has one year remaining on his Stoke contract, struck seven times for the Potters last season.