It was the third game in a row the Magpies had lost, with three goals conceded in each of them, and Thompson has now issued a war cry.
"We wanted to get off to a good start and it hasn't happened."
After Bury made it three a 'Thommo out' banner could be seen unfurled in the Jimmy Sirrel stand while the majority in the 3,700 attendance could be heard to shout 'You don't know what you're doing' in the direction of the former Sheffield United boss.
Thompson admitted it hurt his pride.
"Nobody likes being shouted at and my wife and two kids were here," he admitted.
"I've no doubt my ten year old would be in tears. He's in the Magpies Manager and everytime he goes out he's got a Notts County shirt on and I've got feelings.
"Anyone will tell you at this football club that myself and John Gannon work our socks off and the players do and at the moment it's not happening in front of goal.
"At the start of the season we lost Mike Edwards, arguably the most reliable defender in the league, that was a big loss.
"Then we lost Jason Lee and we can't keep accomodating for that and the one
One man who has lost his job following another defeat this weekend is Lincoln City boss John Schofield aswell as director of football John Deehan.
The pair guided the Imps to the playoffs last season and Schofield was handed a fresh deal in the summer but after a dreadful start to the season culminated in a 4-0 defeat at MK Dons on Sunday, the duo have been sacked.
Speaking today Schofield said: "Leaving the club in this way is disappointing in view of the desire and vision the club and I shared."
Youth and reserve team coach Grant Brown has taken temporary charge at Sincil Bank.