The Frenchman is now a hugely influential figure at the Nou Camp having called time on his career.
And he asserted that authority by making his feelings known prior to Ernesto Vavlerde's recent sacking and clearly felt a change was needed.
Abidal questioned whether players were happy with the Spaniard's methods having seen the Catalan giants struggle this season.
"A lot of players were not happy and did not work much and there was also a problem with internal communication," he told Sport.
"The relationship between the coach and dressing room was always good, but there are things that as an ex-player I can sense. I told the club what I thought and we had to make a decision."
But Messi has responded to those claims by insisting each member of the football club must look at themselves rather than point the finger at the manager.
The Argentine also felt Abidal's decision to go public was an error given how he had spoken for each individual player.
"I honestly do not like to do this kind of thing but I think that everyone has to be responsible for their job and take responsibility for their decisions," he said on Instagram.
"Players for what happens on the field, we are also the first to acknowledge when we don't play well.
"Those in charge of sporting direction should also face up to their responsibilities and above all take charge of their own decisions.
"Lastly, I think that when you talk about players, you should give names because otherwise you are tainting everyone's name and feeding rumours that spread and are not true."