Villas-Boas told reporters at the post-match press conference that Lloris is not his first-choice keeper despite starting the Spurs' last two matches.
The Portuguese coach said: "We spoke among the staff this week about it and we thought it was logical to let Hugo come into a Premier League game because he can't just play in the Europa League.
"Brad obviously was disappointed with the decision but accepted it like the good professional he is.
"Obviously the change was not based on performance because Brad has been immense for this football team.
"We respect that and we will surely look at that for the game against Chelsea."
Lloris helped Spurs achieve their fourth successive Premier League victory against Villa, lifting them to fifth in the table.