They would be produced before a court here on Thursday afternoon, the official said.
The three absconding owners -- Kripesh Sanghavi, Jigar Sanghavi and Abhijit Mankar -- carried a reward of Rs 100,000 announced by Mumbai Police. They have been booked for culpable homicide not amounting to murder.
They were nabbed while on their way to meet a lawyer late Wednesday night on Linking Road in Bandra west.
This takes the total number of arrests in the December 29, 2017 pub fire that killed 14 and injured another 55, to six.
Besides three others nabbed for shielding the accused, including a co-owner of The Mojo's Bistro, Yug Pathak, son of a former DGP-rank IPS officer K.K. Pathak.
Another partner of Pathak, Yug Tuli was still absconding and was spotted in Hyderabad two days ago but managed to give the police a slip.
On Wednesday, a friend Vishal Kariya was nabbed for helping the absconding trio after blaze in The Mojo's Bistro, 1Above and other establishments in the sprawling Kamala Mills Compound in Lower Parel.
A probe by the Mumbai Fire Brigade (MFB) has said that the fire first erupted in rooftop pub The Mojo's Bistro, spread to the adjoining 1Above and other premises that fateful night.
As per latest reports, the railway authorities have halted train services on the harbour line because of the fire outbreak.
No casualties have been reported so far, a fire brigade official said.
The fire broke out near the east side of Bandra local station during a demolition drive carried out by the municipal corporation, the official said.
"Our control room got a call at 4.24 pm and fire brigade personnel along with 16 fire engines and 10 water tankers have been pressed into service," the official said.
The chief PRO of the Central Railway said, "We have stopped Harbour line up and down services from 4.25 pm as a precautionary measure owing to fire near the Bandra station on the east side."