The BBC pundit has questioned the Tottenham Hotspur boss.
After going 1-0 up against the Foxes thanks to a first-half penalty from Andros Townsend, Spurs ended up on the losing side at White Hart Lane as Nigel Pearson's Leicester side came back to win 2-1 late on in north London.
And the key issue Fowler had with the defeat was the fact Tottenham boss Pochettino had made nine changes going into the game.
Sitting next to him in the Match of the Day studio, former Spurs midfielder Jermaine Jenas said he understood the Tottenham manager's plight - especially with a Capital One Cup semi-final second leg against Sheffield United coming up this week.
But Fowler disagreed, asking a key question of Pochettino's players, and cited Leicester as an example of a side that does things the right way.
He said: "You get this momentum - look at Leicester's performance. They've got winning momentum [from playing the same team]. Tottenham have lost the game making nine changes. Why can't players play two games in a row? They can do it."
Spurs travel to Bramall Lane to face the Blades on Wednesday night, having beaten Nigel Clough's side 1-0 in the first leg.
Again, however, the only Tottenham goal that night came from the penalty spot - Townsend again providing it. Pochettino's men looked unconvincing on the whole and were similarly lacklustre against Leicester.
The Spurs boss, then, will have to think very carefully about his next team selection.