Below are some of the ones I've been fortunate enough to get copies of.
Enjoy them, but remember that these stories are properties of their respective authors. If you want to repost them, you should stop by their web sites and ask permission. See the links page.

AUTHOR	WORKS
Interactive Stories: Earthsiege	Part 1 Part 2 Part 3 Part 4 Part 5 Part 6 Part 7 Part 8 Part 9 Part 10
Ace McLeod
FacilityPro	A StarFox Limerick Another Limerick
Fiddlesticks	Saving Private Stinky Starfox Mettalix Starfox: Worped
Flioness	The Claw Squadron Family Pride New Year Bash Not a Choice Swords and Sorcery Royal Blood Bell of the Ball Part 1 The Cavalry Arrives Legacy of a Heroine Friends and Allies Inspirations
Fox McCloud101	The Day of Reckoning
Guacomoli	StarFox 2
H.O.A.R.	SF New Year Silver Bird Missing Send Me an Arwing
KGates	Revealed Secrets, Chapters 1-6 Revealed Secrets, Part 2
KillerThunder	Revision Reiteration
MarioViper	The Lylatian War
Mystic Star	Missing Together
MystOut	The Fight for Fair Play
N64Philodox	Running Against the Wind Tactical Error Silent Snow
Penguinio	STARFOX - The Beginning Dark Wolf Assault on Nsider
Phillips64	Time Warp
Ringshadow	James' Escape Anna Memoirs of a Young Fox A Will to Live (parts 1-3) A Will to Live (parts 4-5) Show Me the Way Happy Halloween! The Silent Bullet Dragon's Fate Invasion Interview with Fox McCloud Death's Wings Reciprocity Combat Artist A Poem
Rita LaShette	Rita in Love
SilverFox	SF Aftermath The Return of Wolf Ghosts of War The Amazing Story War Machine
Sovan Jedi	Medusa's Gaze Lisen's Wrath Trading Places
Spot4	The Legacy (chapters 1-9) Chapter 10 Chapter 11 Chapter 12 Chapter 13 Chapter 14 Chapter 15 Chapter 16
StarFoxandWolf	The Loss of Fox Story 2 Hall of Fame Star Fox Legends Story 5
Tengi	The Starfox Beginning
Thepeanutguy5000	Story 1
The Silent Assassin	Legacy of Starfox LOS: The Lylat Crisis
Trenton Fleury (Drake McCloud)	Friendship and Betrayal We Must Move On Venomian Games
VanBrain	An original Nester's Adventures script featuring StarFox 64!
Vixey Starr	Vixey Starr Before the War Game Day Andross' Children Andross' Children part 2 Vixey Starr's Story