Whitby started the stronger, but some resolute defending from Scalby's Josh Pickin, Connor Avison, Olly Backhouse and Samuel Norton kept the away side’s pacy strikeforce at bay.
When they did break through the odd time, keeper Freddie White was excellent as he flew off his line.
A very tight first half ended goalless with chances for either team at a premium.
Into the second half, Scalby started much better, Louis Kille and Ted Edwards were getting on the ball a lot more and causing problems for Whitby and it was Jake Reeves who scored the goal which turned out to be the winner.
A fine one-two with strike partner Reuben Staveley put the latter in the clear, only for his shot to be saved.
But the ball fell to Reeves, who smashed home.
Whitby had a couple of chances to equalise and right at the death a shot beat keeper White, only for man of the match Tyler Smith to clear off the line.
Referee Jimmy Sutherland then blew for full-time.
Scalby coach Alec Coulson said “I’m really chuffed for the lads, they worked as a team and deserve to get to a final, but full credit to Whitby it was an excellent game.”
Burlington Jackdaws will meet Scalby in the final after they eased past their younger Heslerton Hawks opponents.
With the Hawks giving away a year in age, the difference was apparent from the off, with the visitors unable to match the speed and power of their well-drilled opponents.
Credit should go to the Hawks for a brave display, with Josh Dolan, Josh Robertson and Ben Flinton all impressing with their work-rate, though all the Heslerton team should be congratulated for giving it a go.
A second-half hat-trick by captain Ollie Stanton helped Heslerton Juniors Under-14s to their biggest win of the season against Hunmanby at Sands Lane.
The visitors took an early lead before Roman Butterfield levelled things and Joseph Richardson put the Blues ahead.
The second half saw Stanton hit the third, before the visitors scored at both ends.
Centre-back Reece Sleight then scored from a corner, before striker Tyler Green got on the scoresheet then made the captains second before Stanton ran through to complete his treble.
Olaf Mazur then wrapped up the victory.
Man of the match was the industrious Butterfield.
Scholes Park Under-12s beat Phoenix 6-1 in the quarter-finals of the Scarborough & District Minor Cup.
The first 25 minutes saw Scholes have a number of chances on goal but good goalkeeping from Phoenix and defenders on their toes stopped them from scoring.
Five minutes before half-time a Will Stokoe effort to get the ball into the goalmouth resulted in a goal and the half-time score was 1-0.
Scholes started the second half on the front foot, but again the Phoenix keeper had a cracking half and kept Scholes at bay.
The goalkeeping heroics couldn’t keep Scholes out for long though a further five goals came as Sam Hampton hit two and Jamie Cross, Charlie Baldwin and Coby Rowe all fired in.
Oli Bennett got Phoenix onto the scoresheet with an excellent finish, but this wasn’t enough to secure their position in the next round.
Scholes will meet Whitby Fisherman in the semi-finals.
Ayton Under-12s hosted Holt.
The home side’s captain Keane Knowles took charge from the off, playing ain Owen Mansell, who opened the scoring for the hosts.
Knowles again dribbled through to a one-on-one with the Holt keeper before laying it off for Mike Cairns to tap in.
Josh Hare hit a super shot and Harvey Dolling finished neatly to further their lead.
Holt fought back with some neat play to get one back before half-time and the away side came out fighting in the second half, hitting the bar and post early on.
Neat wing play from Ayton new boy Dan Wood played in Jack Northgraves, who set up Ben Whitehead to score.
Cairns and man of the match Knowles finished the scoring for Ayton before Holt pulled one last deserved goal back.