Both players were left out of the matchday squad for the visit to Butarque as the LaLiga Santander champions finished their domestic campaign.
"With James, you already know what's happened," Zidane said at full time, referring to the Colombian's request to be left out.
"Bale's absence was a technical decision, nothing more."
Eden Hazard also missed out on the game as continues to find full fitness.
"I think Eden had little [injury] problems recently because, when he finished playing [against Villarreal], he had problems; he didn't end well," Zidane explained.
"I hope that, with this break, he recovers completely.
"Those that know about this, about looking after players, will try to get Eden well again."
"During the game, you can get annoyed because we didn't play at our best," Zidane admitted.
"But you remember what we've done up until now and I'll also remember things from this game because we didn't lose.
"We have to be happy with what we did."