Notts County fans turned on manager Steve Thompson as Bury eased to their third away win in a week.
County started brightly and Adam Tann's header hit the bar but Bury seized control when Steve Haslam's speculative 30-yard shot put them ahead.
Neil MacKenzie levelled from the spot after Colin Woodthorpe handled.
But Paul Scott marched through to restore the lead and victory was completed when Tann felled Glynn Hurst and Nicky Adams netted the penalty.
Notts County: Pilkington, Silk, Tann, Hunt, McCann, Somner, MacKenzie (Parkinson 74), Butcher, Dudfield, Crow (Weston 65), Weir-Daley (Sam 83).
Subs Not Used: Sandercombe, Rob Austin.
Booked: Somner, McCann.
Goals: MacKenzie 64 pen.
Bury: Provett, Futcher, Challinor, Morgan, Scott, Haslam, Adams (Baker 90), Bullock, Woodthorpe, Hurst (Rouse 90), Mangan.
Subs Not Used: Barry-Murphy, Buchanan, Parrish.
Goals: Haslam 35, Scott 67, Adams 90 pen.
Ref: Steven Cook