After compatriot Jason Kenny had led the way after the first two days of competition Hoy leapt to the top of the leaderboard midway through the competition.
And 24 hours later the 36-year-old showed he is in no mood to relinquish his lead as he recorded two victories to stay at the top of the pile.
Hoy once again teamed up with home cyclist Teun Mulder in the two-man team sprint and the duo got the better of Kenny and Frenchman Gregory Bauge by over half a second.
There was a three-way battle in the individual sprint as Hoy and Mulder could not be separated in their semi-final, even with a photo finish, while Kenny comfortable saw off the challenge of Bauge.
But it was Hoy who reigned supreme again as he edged out Kenny and Mulder in the showdown to extend his lead.
And in the final event of Sunday evening, the kierin, world sprint champion and Olympic silver medallist Bauge finally managed his first victory of the event, with Hoy in second, Kenny third and Mulder finishing fourth.
Heading into the final two days of competition Hoy is now four points clear of Kenny in the Giant Sprint Masters event, with Mulder third and Bauge fourth.