| Season: | 2012–13 |
| Manager: | Alan Knill (until 29 October) Brian Laws (from 29 October) |
| League Result: | 21st (relegated) |
| Cup1 Result: | First round |
| Cup2 Result: | Second round |
| Cup3 Result: | First round |
| League Topscorer: | Leon Clarke (11) Karl Hawley (11) |
| Season Topscorer: | Leon Clarke (11) Karl Hawley (11) |
| Highest Attendance: | 6,020 vs Swindon Town, 27 April |
| Lowest Attendance: | 752 vs Notts County, 5 September |
| Average Attendance: | 3,498 |
| Pattern B1: | _scunthorpe1213h |
| Pattern Sh1: | _trabzonspor1112h |
| Leftarm1: | 800020 |
| Body1: | 800020 |
| Rightarm1: | 3BB9FF |
| Shorts1: | 800020 |
| Socks1: | 3BB9FF |
| Pattern B2: | _nike_2010_on_white |
| Leftarm2: | FFFFFF |
| Body2: | FF0000 |
| Rightarm2: | FFFFFF |
| Shorts2: | FFFFFF |
| Socks2: | FFFFFF |
| Nextseason: | 2013–14 |
The 2012–13 season was Scunthorpe United F.C.'s second consecutive in Third Tier of the Football League.
|-|colspan="14"|Players currently on loan:|-|colspan="14"|Players featured for club who have left: |}
| N | P | Name | Total | |||||
|---|---|---|---|---|---|---|---|---|
| FW | Leon Clarke | 11 | 0 | 0 | 0 | 11 | ||
| 22 | FW | Karl Hawley | 11 | 0 | 0 | 0 | 11 | |
| 15 | DF | Niall Canavan | 6 | 0 | 0 | 0 | 6 | |
| 16 | MF | Mark Duffy | 4 | 0 | 1 | 1 | 6 | |
| 9 | FW | Akpo Sodje | 6 | 0 | 0 | 0 | 6 | |
| 8 | MF | Damien Mozika | 2 | 0 | 0 | 0 | 2 | |
| 2 | DF | Christian Ribeiro | 2 | 0 | 0 | 0 | 2 | |
| FW | Bobby Grant | 0 | 0 | 2 | 0 | 2 | ||
| 10 | FW | Mike Grella | 1 | 0 | 1 | 0 | 2 | |
| 7 | MF | Jimmy Ryan | 2 | 0 | 0 | 0 | 2 | |
| 27 | FW | James Alabi | 1 | 0 | 0 | 0 | 1 | |
| 11 | MF | Andy Barcham | 0 | 0 | 1 | 0 | 1 | |
| 19 | MF | Michael Collins | 1 | 0 | 0 | 0 | 1 | |
| 12 | FW | Connor Jennings | 0 | 0 | 1 | 0 | 1 | |
| 6 | DF | Paul Reid | 1 | 0 | 0 | 0 | 1 | |
| Totals | 47 | 0 | 6 | 1 | 54 | |||
| No. | Pos. | Name | League One | FA Cup | League Cup | League Trophy | Total | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | GK | Sam Slocombe | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | |
| 2 | DF | Christian Ribeiro | 4 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 4 | 0 | |
| 3 | DF | Callum Kennedy | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | |
| 4 | MF | Josh Walker | 5 | 1 | 0 | 0 | 1 | 0 | 0 | 0 | 6 | 1 | |
| 5 | DF | David Mirfin | 2 | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 3 | 1 | |
| 6 | DF | Paul Reid | 8 | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 9 | 1 | |
| 7 | MF | Jimmy Ryan | 6 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 6 | 0 | |
| 8 | MF | Damien Mozika | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | |
| FW | Bobby Grant | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 0 | ||
| 9 | FW | Akpo Sodje | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | |
| 10 | FW | Mike Grella | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 0 | |
| 11 | FW | Andy Barcham | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | |
| 12 | FW | Connor Jennings | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 1 | 0 | |
| 14 | MF | Robbie Gibbons | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | |
| 15 | DF | Niall Canavan | 4 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 4 | 0 | |
| 16 | MF | Mark Duffy | 4 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 4 | 1 | |
| 19 | MF | Michael Collins | 3 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 4 | 0 | |
| 21 | DF | Tom Newey | 7 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 7 | 0 | |
| 22 | FW | Karl Hawley | 1 | 1 | 1 | 0 | 0 | 0 | 0 | 0 | 2 | 1 | |
| MF | David Prutton | 5 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 6 | 0 | ||
| 28 | FW | James Alabi | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | |
| DF | Mark McChrystal | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | ||
| 29 | FW | Adda Djeziri | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | |
| Totals | 60 | 4 | 4 | 0 | 4 | 0 | 1 | 0 | 70 | 5 | |||
| Games played | 50 (46 League One, 1 FA Cup, 2 League Cup, 1 League Trophy) | |
| Games won | 13 (13 League One, 0 FA Cup, 0 League Cup, 0 League Trophy) | |
| Games drawn | 10 (9 League One, 0 FA Cup, 1 League Cup, 0 League Trophy) | |
| Games lost | 27 (24 League One, 1 FA Cup, 1 League Cup, 1 League Trophy) | |
| Goals scored | 59 (50 League One, 0 FA Cup, 6 League Cup, 1 League Trophy) | |
| Goals conceded | 88 (73 League One, 4 FA Cup, 7 League Cup, 2 League Trophy) | |
| Goal difference | −29 | |
| Clean sheets | 5 (5 League One, 0 FA Cup, 0 League Cup, 0 League Trophy) | |
| Yellow cards | 69 (60 League One, 4 FA Cup, 4 League Cup, 1 League Trophy) | |
| Red cards | 5 (5 League One, 0 FA Cup, 0 League Cup, 0 League Trophy) | |
| Worst discipline | Paul Reid (9 1) | |
| Best result | 4–1 vs Walsall (A) | |
| Worst result | 0–4 vs Yeovil Town (H), Gillingham (A) & Doncaster Rovers (A) | |
| Most appearances | Tom Newey (49 apps) | |
| Top scorer | Leon Clarke & Karl Hawley (11 goals) | |
| Points | 48 |
| Opposition | Home score | Away score | Double | |
|---|---|---|---|---|
| Bournemouth | 1–2 | 0–1 | ||
| Brentford | 1–1 | 0–1 | ||
| Bury | 1–2 | 1–2 | ||
| Carlisle United | 3–1 | 1–1 | ||
| Colchester United | 1–0 | 2–1 | ||
| Coventry City | 1–2 | 2–1 | ||
| Crawley Town | 2–1 | 0–3 | ||
| Crewe Alexandra | 1–2 | 0–1 | ||
| Doncaster Rovers | 2–3 | 0–4 | ||
| Hartlepool United | 1–2 | 0–2 | ||
| Leyton Orient | 2–1 | 3–1 | ||
| Milton Keynes Dons | 0–3 | 1–0 | ||
| Notts County | 1–1 | 0–1 | ||
| Oldham Athletic | 2–2 | 1–1 | ||
| Preston North End | 2–3 | 0–3 | ||
| Portsmouth | 2–1 | 1–2 | ||
| Sheffield United | 1–1 | 0–3 | ||
| Shrewsbury Town | 0–0 | 1–0 | ||
| Stevenage | 1–0 | 0–1 | ||
| Swindon Town | 3–1 | 1–1 | ||
| Tranmere Rovers | 1–3 | 0–1 | ||
| Walsall | 1–1 | 4–1 | ||
| Yeovil Town | 0–4 | 0–3 |