| One Hundred Years From Now | Alpha Mike Foxtrot: Rare Tracks 1994-2014 | 2 |
| One More Night | | 1 |
| One Sunday Morning (Song For Jane Smiley's Boyfriend) | The Whole Love | 75 |
| One Wing | Wilco (the album) | 159 |
| Open Mind | The Whole Love | 11 |
| Out On The Weekend | Cover | 1 |
| Outta Mind (Outta Sight) | Being There | 93 |
| Outtasite (Outta Mind) | Being There | 426 |
| Outtro | | 1 |
| Panthers (Proving Death Again) | Alpha Mike Foxtrot: Rare Tracks 1994-2014 | 2 |
| Paranoid | Cover | 2 |
| Passenger Side | A.M. | 406 |
| Peace In The Valley | | 1 |
| Pecan Pie | Down By The Old Mainstream | 53 |
| Person I Used To Be | | 1 |
| Pick Up The Change | A.M. | 130 |
| Pieholden Suite | Summerteeth | 24 |
| Pink Moon | Cover | 1 |
| Piss It Away | | 2 |
| Please Be Patient With Me | Sky Blue Sky | 13 |
| Please Tell My Brother | Weird Tales | 53 |
| Political Science | Cover | 22 |
| Poor Places | Yankee Hotel Foxtrot | 329 |
| Pot Kettle Black | Yankee Hotel Foxtrot | 196 |
| Promising | Chelsea Walls | 9 |
| Psycho Killer | Cover | 1 |
| Radio Cure | Yankee Hotel Foxtrot | 139 |
| Radio King | Down By The Old Mainstream | 26 |
| Rainbow Connection | Cover | 1 |
| Red-Eyed And Blue | Being There | 392 |
| Reflections On A Crystal Wind | Cover | 4 |
| Reincarnation | Cover | 20 |
| Remember The Mountain Bed | Mermaid Avenue, Vol. 2 | 154 |
| Reservations | Yankee Hotel Foxtrot | 198 |
| Retrieval Of You | Down With Wilco | 4 |
| Ripple | Cover | 5 |
| Rising Red Lung | The Whole Love | 21 |
| Rock Salt And Nails | Cover | 1 |
| Rock n Roll Queen | | 1 |
| Sally Free And Easy | Cover | 1 |
| Sandusky | March 16-20, 1992 | 2 |
| Satan, Your Kingdom Must Come Down | March 16-20, 1992 | 23 |
| Save My Ass | | 1 |
| Say You Miss Me | Being There | 47 |
| Screen Door | No Depression | 23 |
| Secret Of The Sea | Mermaid Avenue, Vol. 2 | 21 |
| Shake It Off | Sky Blue Sky | 44 |
| She's A Jar | Summerteeth | 319 |
| Should I Stay Or Should I Go? | Cover | 1 |
| Should've Been In Love | A.M. | 74 |
| Shouldn't Be Ashamed | A.M. | 88 |
| Side With The Seeds | Sky Blue Sky | 165 |
| Simple Twist Of Fate | Cover | 4 |
| Six Months In A Leaky Boat | Cover | 1 |
| Sky Blue Sky | Sky Blue Sky | 71 |
| Smoke on the Water | Cover | 1 |
| So Long | Loose Fur | 3 |
| So Much Wine (Butterfly) | Cover | 5 |
| Solid Land | | 2 |
| Solitaire | Wilco (the album) | 5 |
| Someday Some Morning Sometime | Mermaid Avenue, Vol. 2 | 30 |
| Someday Soon | Being There | 114 |
| Someone Else's Song | Being There | 139 |
| Something In The Air | Cover | 19 |
| Sonny Feeling | Wilco (the album) | 46 |
| Special Day | | 1 |
| Spiders (Kidsmoke) | A Ghost Is Born | 475 |
| Standing O | The Whole Love | 48 |
| Stardog's Lament | | 1 |
| Street Success | | 2 |
| Sugar Baby | Cover | 18 |
| Summer Teeth | Summerteeth | 110 |
| Sunday Bloody Sunday | Cover | 1 |
| Sunken Treasure | Being There | 325 |
| TV Eye | Cover | 2 |
| Take This Hammer | Cover | 1 |
| Ten Years Ago Today | Arabella | 3 |
| Thank You Friends | Cover | 16 |
| That Year | No Depression | 1 |
| That's Not The Issue | A.M. | 116 |
| That's Not The Way It's Done | Down With Wilco | 4 |
| The Auld Triangle | Cover | 14 |
| The Community Song | | 5 |
| The Family Gardener | Down With Wilco | 7 |
| The Good Part | Alpha Mike Foxtrot: Rare Tracks 1994-2014 | 12 |
| The Late Greats | A Ghost Is Born | 390 |
| The Lonely 1 | Being There | 112 |
| The Lonesome Wind That Blows | | 1 |
| The Long Cut | Anodyne | 91 |
| The New World | Cover | 1 |
| The Night Chicago Died Again | | 1 |
| The Old Plantation | Down With Wilco | 3 |
| The Ruling Class | | 55 |
| The Shape I'm In | Cover | 1 |
| The TB Is Whippin' Me | Alpha Mike Foxtrot: Rare Tracks 1994-2014 | 1 |
| The Thanks I Get | Sky Blue Sky Tour EP | 39 |
| The Town That Lost Its Groove Supply | Down With Wilco | 4 |
| The Weight | Cover | 1 |
| Theologians | A Ghost Is Born | 280 |
| Thirteen | Alpha Mike Foxtrot: Rare Tracks 1994-2014 | 11 |