Many of John William Boone's compositions are hard to document. Printed transcriptions often came from piano rolls, and not all of his pieces were documented in that manner, nor were all piano rolls preserved. Here is a partial catalogue of works:

Aurora Waltz, 1907
Camp Meeting Medley #1, arrangement
Caprice de Concert #1, 1893
Caprice de Concert #2, 1893
Dixie, variations (Emmett)
Echoes of the Forest, Reverie
Gavotte Chromantique
Georgia Melon, song, Boone/Boone
Grand Valse de Concert, 1893
Hummingbird: Morceau de Salon, 1886
Josephine Polka, 1891, dedicated to Josephine Hoffman
Last Dream Waltz, 1909
Love Feast Waltz, 1913
Marshfield Tornado, programmatic work 1880, aka Marshfield Cyclone
My Old Kentucky Home, variations (Foster)
Nearer My God to Thee, variations
Nicodemus, Melodie de Negres, variations
Old Folks at Home, Grand Fantasie, 1894 (Foster)
Signs of the Times, song, Dunbar/Boone
Southern Rag Medley #1: Strains from the Alleys - Make Me a Pallet On the Floor, Oh No Babe, and I Love Dat Yellow Man
Southern Rag Medley #2: Strains from the Flat Branch - Carrie's Gone to Kansas City, I'm Alabama Bound, So They Say and Oh! Honey, Ain't You Sorry
Sparks, Gallop de Concert, 1894
Spring, Reverie, 1895
Three Caprices de Concert,1902
Waltz de Concert #1, Tarentella
Waltz de Concert #2, Caprice Africain #1
When You and I Were Young Maggie, variations (Butterfield)
Whippoorwill, Romance, 1891
Woodland Murmurs: A Spinning Song