An early injury to Blackburn's Stefan Mols meant that defender Doyle had to move into midfield.
And in the 55th minute, Rovers took the lead when Doyle's shot hit the post and Joe Rankin-Costello turned in the rebound.
Doyle doubled the lead in the 65th minute with a superb volley from a left-wing cross by Jack Doyle.
Blackburn trail leaders Middlesbrough by two points while Stoke stay ninth.
Blackburn: 3 Nov v Watford (H), (PL Cup)
Stoke: 3 Nov v Charlton (H), (PL Cup)