Pearce told the media that Jones had shingles, a virus similar to chicken pox, after the Manchester United youngster pulled out of the England under-21 squad to face Sweden earlier this week.
But the former-Blackburn man is now in United's match-day squad to face Everton on Sunday, leading to suggestions that the complaint was not as serious as first let on.
And Ferguson is not happy with Pearce for disclosing the information.
"What about doctor confidentiality?" said Ferguson in the Independent. "We are disappointed with that."
The United boss also registered his displeasure with the Football Association's propensity to leak information relating to Manchester United players.
Earlier this season, England boss Roy Hodgson declared Ashley Young was absent with a knee injury, much to the dismay of Ferguson.
"It's something we have to address," continued the United boss. "The FA is a big organisation, things can leak from a lot of different places.
"But that was a conversation between our doctor and theirs, and shouldn't have gone any further."
But there was good news for United, as Ferguson confirmed Young and Carrick will both be fit for the visit of Everton to Old Trafford this weekend.
Carrick pulled out of Hodgson's team to face Brazil with a hip problem, while Young has recovered from a more recent knee complaint, and both will be available for selection to face David Moyes's side on Sunday.
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