Flores witnessed Hughes up close in Spain as he was playing for Valencia when the Welshman joined Barcelona from Manchester United in 1986.
The pair go head to head in the Barclays Premier League this weekend as Watford visit Stoke, looking to end the Potters' three-match winning run.
Hughes played only one season at the Nou Camp before returning to England, but the former striker still made a strong impression on Flores with his combative style of play.
"He was there for one year at Barcelona
He was stronger than me
He crashed hard into players
I remember that," Flores said.
"He was always keeping the ball with his back to goal
He was a very tough opponent.
"But you can't make such a difference as a manager
Of course Mark Hughes has the respect of the players and the league because he did everything in football.
"But fortunately we are not playing against Mark Hughes
It is the players of Watford against the players of Stoke.
"Mark and me, we are on the bench so our influences are limited in the match.
"I am not surprised the player I saw at Barcelona became a coach."
While Stoke have hit form after a poor opening to the season, Watford's bright start has turned slightly sour of late, with Flores' side now winless in three.
The Hornets sit 15th in the table, four points clear of the relegation places, but Flores insists he is not satisfied with survival
"I am very confident in what I do and what the players are doing every week," Flores said.
"It's very positive where we are
If we are not in the bottom three and fighting for the higher positions, it's perfect.
"We are not thinking about the bottom three, we are thinking about 10th, 11th, 12th.
"Right now we are angry
We are not comfortable
Now we are 15th it is good news but we want more
We are working hard to create something special."
Source : PA
Source: PA