Kane appeared to draw a foul from Adam Lallana to win the spot-kick, which he then converted.
But Spurs boss Mourinho launched an impassioned defence of the England striker during his press conference ahead of the Europa League tie against Ludogorets, claiming Lallana had been reckless.
“Harry Kane was in a position to control the ball and (Adam) Lallana came in a reckless fashion. Why are you saying it is clever?” Mourinho said.
“Clever is taking the ball and scoring a goal. It’s a foul.
“I thought it was a direct free-kick but VAR said it was inside the box because it was on the line. What are we talking about being clever?
“Harry Kane just wants to score goals. Lallana was reckless.
“Why are you speaking about us? Speak about Liverpool, Manchester United, City and others with ‘clever’ players and getting penalties. Don’t speak about Harry Kane.”
BBC's football pundit Martin Keown completely disagrees with the Spurs boss. "Harry Kane knows exactly what he's doing," said Keown on MOTD2.
"Spurs fans aren't going to want to hear this. He looks at his opponent and he knows he's going to try and make a little back for him and Lallana will go over the top.
"I think it's dangerous play on Lallana but no, the referee does not understand it, he does not understand the game well enough.
"Kane knows exactly what he is doing, it's dangerous from Harry but he gets the penalty. It's not even in the box really."