Hammers chiefs made an official complaint - confirmed yesterday by the Premier League - after Cottagers boss Roy Hodgson fielded a 'weakened' team and lost 2-0 at struggling Hull last Saturday.
But Zola admitted: "I didn't know it was happening. I've no doubts Roy is doing his best for his team.
"He's a person I respect for his loyalty and I have no complaints with that.
"I'm sure he did the right thing for his club."
Zola's comments will not go down well with West Ham's co-owners David Gold and Sullivan, who may view them as disloyal.