Here is the full list of all 51 METAL GEAR SOLID 3: Snake Eater - there are Master Collection Version achievements.
Defeat Shagohod
Defeat Volgin
Defeat The Sorrow
Defeat The Fury
Make Snake throw up
Defeat The End
Achieve a camouflage index of 100%
Sneak up on The End and hold him up
Defeat The Fear
Eat a snake of any type
Defeat The Pain
Capture any animal alive
Achieve a camouflage index of +90%
Shoot a Kerotan for the first time
Create the Ocelot Time Paradox
Submit Ocelot
Use bees to harass an enemy
Defeat The Boss
Finish the game on any difficulty
CQC Slam a guard and knock him out
CQC Interrogate an enemy
Hold up an enemy
CQC Slit an enemy's throat
Use a knife to remove a bullet
Poison a guard
Call one Healing Radio frequency
Call every Healing Radio frequency
Blow up a munitions shed with TNT
Use the Fake Death pill
Catch a Tsuchinoko (mythical serpent)
Kill The End before the boss battle
Catch a glimpse of Ocelot, who’s seen behind the president when he tries to shake Snake’s hand
Discover all first-person views that are not indicated by the button icon
Find all 64 Kerotans
Collect every type of medicinal plant
Collect every type of fruit
Collect every type of mushroom
Collect every type of bird
Collect every type of snake
Collect every type of fish
Collect every type of frog
Collect every type of weapon
Find every type of camouflage
Find every type of face paint
Obtain title of MARKHOR
Obtain the stealth camo
Obtain the Infinity Face Paint
Finish game without killing anyone
Clear the game without entering Alert Mode (not including events where Alert Mode is mandatory)
Earn the title of FOXHOUND
Read all the pages in the Screenplay Book