| Saturday 14th August 1999 | Premier Division | ||
|---|---|---|---|
| Mossley | 4-2 | Clitheroe | |
| Tuesday 17th August 1999 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 1-0 | Ramsbottom United | |
| Saturday 21st August 1999 | F.A. Challenge Cup Preliminary Round | ||
|---|---|---|---|
| Ashton United | 2-1 | Clitheroe | |
| Tuesday 24th August 1999 | Premier Division | ||
|---|---|---|---|
| Fleetwood Freeport | 1-0 | Clitheroe | |
| Saturday 28th August 1999 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 0-0 | Nantwich Town | |
| Tuesday 31st August 1999 | Premier Division | ||
|---|---|---|---|
| Rossendale United | 1-4 | Clitheroe | |
| Saturday 4th September 1999 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 1-1 | Glossop North End | |
| Tuesday 7th September 1999 | Premier Division | ||
|---|---|---|---|
| Ramsbottom United | 1-1 | Clitheroe | |
| Saturday 11th September 1999 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 4-0 | Maine Road | |
| Tuesday 14th September 1999 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 4-4 | Skelmersdale United | |
| Friday 17th September 1999 | Premier Division | ||
|---|---|---|---|
| Vauxhall Motors | 1-3 | Clitheroe | |
| Tuesday 21st September 1999 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 2-3 | Fleetwood Freeport | |
| Saturday 25th September 1999 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 1-0 | Kidsgrove Athletic | |
| Wednesday 6th October 1999 | Premier Division | ||
|---|---|---|---|
| St Helens Town | 3-2 | Clitheroe | |
| Saturday 9th October 1999 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 5-2 | Atherton LR | |
| Tuesday 12th October 1999 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 2-0 | Abbey Hey | |
| Saturday 16th October 1999 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 1-1 | Leek CSOB | |
| Tuesday 19th October 1999 | Premier Division | ||
|---|---|---|---|
| Salford City | 2-0 | Clitheroe | |
| Saturday 23rd October 1999 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 2-0 | St Helens Town | |
| Tuesday 26th October 1999 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 0-0 | Atherton Collieries | |
| Saturday 30th October 1999 | Premier Division | ||
|---|---|---|---|
| Abbey Hey | 0-3 | Clitheroe | |
| Saturday 6th November 1999 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 4-2 | Cheadle Town | |
| Tuesday 9th November 1999 | Premier Division | ||
|---|---|---|---|
| Skelmersdale United | 0-2 | Clitheroe | |
| Saturday 13th November 1999 | F.A. Carlsberg Vase 2nd Round | ||
|---|---|---|---|
| Morpeth Town | 1-2 | Clitheroe | |
| (After Extra Time, 1-1 after 90 mins) | |||
| Saturday 20th November 1999 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 2-1 | Mossley | |
| Saturday 4th December 1999 | F.A. Carlsberg Vase 3rd Round | ||
|---|---|---|---|
| Newcastle Town | 2-1 | Clitheroe | |
| Saturday 18th December 1999 | Premier Division | ||
|---|---|---|---|
| Kidsgrove Athletic | 1-3 | Clitheroe | |
| Monday 27th December 1999 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 2-1 | Great Harwood Town | |
| Monday 3rd January 2000 | Premier Division | ||
|---|---|---|---|
| Great Harwood Town | 0-3 | Clitheroe | |
| Saturday 8th January 2000 | Premier Division | ||
|---|---|---|---|
| Newcastle Town | 1-2 | Clitheroe | |
| Saturday 15th January 2000 | Premier Division | ||
|---|---|---|---|
| Maine Road | 2-1 | Clitheroe | |
| Saturday 22nd January 2000 | Premier Division | ||
|---|---|---|---|
| Atherton LR | 2-4 | Clitheroe | |
| Saturday 29th January 2000 | Premier Division | ||
|---|---|---|---|
| Prescot Cables | 3-1 | Clitheroe | |
| Saturday 5th February 2000 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 2-2 | Salford City | |
| Saturday 12th February 2000 | Premier Division | ||
|---|---|---|---|
| Bootle | 1-4 | Clitheroe | |
| Saturday 19th February 2000 | Premier Division | ||
|---|---|---|---|
| Cheadle Town | 0-1 | Clitheroe | |
| Saturday 26th February 2000 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 3-0 | Bootle | |
| Saturday 4th March 2000 | Premier Division | ||
|---|---|---|---|
| Atherton Collieries | 1-3 | Clitheroe | |
| Saturday 11th March 2000 | Premier Division | ||
|---|---|---|---|
| Nantwich Town | 1-0 | Clitheroe | |
| Saturday 18th March 2000 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 0-1 | Rossendale United | |
| Saturday 25th March 2000 | Premier Division | ||
|---|---|---|---|
| Glossop North End | 1-0 | Clitheroe | |
| Saturday 8th April 2000 | Premier Division | ||
|---|---|---|---|
| Leek CSOB | 1-0 | Clitheroe | |
| Saturday 15th April 2000 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 0-2 | Vauxhall Motors | |
| Tuesday 18th April 2000 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 0-1 | Prescot Cables | |
| Saturday 6th May 2000 | Premier Division | ||
|---|---|---|---|
| Clitheroe | 0-1 | Newcastle Town | |
