A converted penalty got Yarmouth underway on 17 minutes after Julian Turner was penalised for handball while three minutes later the striker tapped home from a yard after a long range shot was spilt.
Adam Webster got the visitors back into the game early in the second half but an altercation between Scriven and Stowmarket's central defenders Gareth Ward and Turner left the Bloaters down to ten men for the last seven minutes.
Scriven’s inclusion was one of four enforced changes made to the starting line up, which also saw George Barnden
, Neil McMorran
and Russell Cook come in for Mitch Forbes, Shaun MacLeod, Simeon Lee and Ben Cudden
Yarmouth had the first chance of the game as Barnden rose highest to flick a Scriven free kick wide on 15 minutes.
The next free kick a minute later literally handed the Bloaters a chance to take the lead. Another Scriven set piece hit the arm of Stowmarket defender Turner - the referee had no other option but to point to the spot.
Up stepped Scriven to confidently power home, sending keeper Carl Pearson the wrong way in the process.
Three minutes later and the Bloaters were two up. A low shot from the edge of the box by midfielder Callum Jones
was spilt by keeper Pearson, straight into the path of the onrushing Scriven to complete his brace from a yard.
The striker could have completed his hat-trick ten minutes later but he placed Charlie McAra
's low cross wide of the near post.
And Scriven was desperately unlucky with another chance the came three minutes from half time. The striker’s grasscutter from 18 yards was bundled onto the inside of the post and roll across the goalline before being cleared.
With the majority of the action in Stowmarket's box, Cook was rarely called upon, only needed to dive at the feet of Craig Brown in a shooting position and to deal with Jack Watson's long range drive that was straight at the keeper at the end of the half.
On contrast the second half saw the goal that got Stowmarket back into the game. Adam Pearson's low shot was parried by Cook, only for the rebound to fall back to Pearson to roll into an empty net.
Moments later Kieran Morley’s header was cleared off the line by a combination of Johnny Jarvis
and Neil McMorran
On 68 minutes Luke Webster's individual run and deflected shot from 18 yards curl round the far post.
While ten minutes later Yarmouth found Marian Jobbagy
but the substitute dragged his shot wide while moments later McAra diverted Jones' cross over the bar from six yards.
The Bloaters' search for a third goal of the afternoon was temporarily halted seven minutes from time as visiting captain Gareth Ward looked to point his forehead at Scriven's head, prompting the striker to fall to the ground. Fellow Stowmarket defender Julian Turner, angry at the striker’s reaction, appeared to stamp on the striker's leg.
Ward was booked for aggressive behaviour, as did Turner, while Scriven was given two yellow cards meaning he will miss the home game against Newmarket Town.
Despite being down to ten men the Bloaters continued to look for the third goal, Joe Bryanton
hit the inside of the post after latching onto Jobbagy's low cross.
While in stoppage time Cook dived at the feet of Luke Webster and dealt with a long range shot by Yani Doka to secure the three points.
Yarmouth XI: Russell Cook, Johnny Jarvis
72), Joe Bryanton
, Callum Jones
, Neil McMorran
, Iain Mills, Danny Burkle, George Barnden
59), Danny Scriven, Charlie McAra
, Fernando Vide (David Grandao
Goals: Scriven 17 pen, 20
Bookings: Scriven 83, Jones 89
Red Cards: Scriven 83