Flitcroft has turned Barnsley's season on its head since stepping up from assistant to replace Keith Hill earlier this month, and the 2-1 win took their points tally under his stewardship to 13 from a possible 15.
In a fiercely contested match Jim O'Brien gave the visitors the lead in the 25th minute only for Tom Ince to level things after the break.
The game turned in Barnsley's favour when Blackpool goalkeeper Matt Gilks saw red for handling outside the box just after the hour, before Scotland popped up with the winner two minutes from time.
"I'll remember those 14 players who turned out for the rest of my life," said Flitcroft, who signed Scotland following his release from Ipswich earlier this month.
"There was bravery out there from start to finish - we just showed no fear whatsoever.
"The Steve Thompson way is very much a mirror image of the Ian Holloway at Blackpool so we didn't underestimate how tough it was going to be.
"They get players into some incredible positions, but for all that we've matched them and we really had to dig deep in every way.
"Every single player on the field played a major part and we've proved again that there's no room for complacency at this stage of the season."
- Sports & Recreation
- Matt Gilks
- Tom Ince