| new song (Let's Fight) | | 3 |
| fragment of Elizabeth Cotten song | | 2 |
| Ziggy Stardust | Cover | 8 |
| You're Really Gone | | 1 |
| You Were Wrong | Loose Fur | 8 |
| You Never Know | Wilco (the album) | 74 |
| You Don't Mean It | | 1 |
| You Are Not Alone | | 3 |
| You Are My Face | Sky Blue Sky | 250 |
| You And I | Wilco (the album) | 21 |
| Yesterday | Cover | 4 |
| Yellow Sumbarine | Cover | 1 |
| Woodgrain | More Like The Moon EP | 3 |
| Won't Get Fooled Again | Cover | 5 |
| With A Gun | | 3 |
| Wishful Thinking | A Ghost Is Born | 44 |
| Will You Still Love Me Tomorrow | Cover | 20 |
| Wilco (The Song) | Wilco (the album) | 98 |
| Why Would You Wanna Live | Being There | 88 |
| Whole Love | The Whole Love | 138 |
| Who Were You Thinking Of | Alpha Mike Foxtrot: Rare Tracks 1994-2014 | 21 |
| Wherever | | 10 |
| Where Will You Go? | Down With Wilco | 4 |
| When You're Not Mine | | 3 |
| When You Wake Up Feeling Old | Summerteeth | 47 |
| When The Roses Bloom Again | Chelsea Walls | 77 |
| When I'm Gone | | 1 |
| What's The World Got In Store | Being There | 24 |
| What Light | Sky Blue Sky | 42 |
| What I Don't Believe | Down With Wilco | 3 |
| Wellspring | | 1 |
| We've Been Had | Anodyne | 133 |
| We're Just Friends | Summerteeth | 42 |
| We'll Meet Again | Arabella | 3 |
| We Have Laid Here | | 1 |
| Watch Me Fall | Still Feel Gone | 15 |
| War On War | Yankee Hotel Foxtrot | 552 |
| Walt Whitman's Niece | Mermaid Avenue | 1 |
| Walken | Sky Blue Sky | 361 |
| Walk Where He Walked | Down By The Old Mainstream | 25 |
| Walk On | Cover | 4 |
| Wait Up | March 16-20, 1992 | 75 |
| View From Below | Down With Wilco | 4 |
| Via Chicago | Summerteeth | 377 |
| Unknown??? | | 6 |
| Twinkle Twinkle Little Star | Cover | 2 |
| Twilight Distillery | | 1 |
| Turn Around and Come Back To Me | | 4 |
| True Love Will Find You In the End | Alpha Mike Foxtrot: Rare Tracks 1994-2014 | 18 |
| Too Far Gone | Cover | 1 |
| Too Far Apart | A.M. | 86 |
| This Ain't No Lounge Ax | | 2 |
| Thirteen | Alpha Mike Foxtrot: Rare Tracks 1994-2014 | 11 |
| Theologians | A Ghost Is Born | 280 |
| The Weight | Cover | 1 |
| The Town That Lost Its Groove Supply | Down With Wilco | 4 |
| The Thanks I Get | Sky Blue Sky Tour EP | 39 |
| The TB Is Whippin' Me | Alpha Mike Foxtrot: Rare Tracks 1994-2014 | 1 |
| The Shape I'm In | Cover | 1 |
| The Ruling Class | | 55 |
| The Old Plantation | Down With Wilco | 3 |
| The Night Chicago Died Again | | 1 |
| The New World | Cover | 1 |
| The Long Cut | Anodyne | 91 |
| The Lonesome Wind That Blows | | 1 |
| The Lonely 1 | Being There | 112 |
| The Late Greats | A Ghost Is Born | 390 |
| The Good Part | Alpha Mike Foxtrot: Rare Tracks 1994-2014 | 12 |
| The Family Gardener | Down With Wilco | 7 |
| The Community Song | | 5 |
| The Auld Triangle | Cover | 14 |
| That's Not The Way It's Done | Down With Wilco | 4 |
| That's Not The Issue | A.M. | 116 |
| That Year | No Depression | 1 |
| Thank You Friends | Cover | 16 |
| Ten Years Ago Today | Arabella | 3 |
| Take This Hammer | Cover | 1 |
| TV Eye | Cover | 2 |
| Sunken Treasure | Being There | 325 |
| Sunday Bloody Sunday | Cover | 1 |
| Summer Teeth | Summerteeth | 110 |
| Sugar Baby | Cover | 18 |
| Street Success | | 2 |
| Stardog's Lament | | 1 |
| Standing O | The Whole Love | 48 |
| Spiders (Kidsmoke) | A Ghost Is Born | 475 |
| Special Day | | 1 |
| Sonny Feeling | Wilco (the album) | 46 |
| Something In The Air | Cover | 19 |
| Someone Else's Song | Being There | 139 |
| Someday Soon | Being There | 114 |
| Someday Some Morning Sometime | Mermaid Avenue, Vol. 2 | 30 |
| Solitaire | Wilco (the album) | 5 |
| Solid Land | | 2 |
| So Much Wine (Butterfly) | Cover | 5 |
| So Long | Loose Fur | 3 |
| Smoke on the Water | Cover | 1 |
| Sky Blue Sky | Sky Blue Sky | 71 |
| Six Months In A Leaky Boat | Cover | 1 |
| Simple Twist Of Fate | Cover | 4 |