Version Differences

Prime

There are a ton of version differences for Metroid Prime, so check out this link from The Cutting Room Floor: https://tcrf.net/Metroid_Prime/Version_Differences

The size of the screw attack is bigger in Trilogy so that it isn´t possible anymore to go out of bounds through Morph Ball tunnels.
Spider Guardian´s damage inflicting barrier was shortened in Trilogy so he can´t hit you through walls anymore.
Ing Smashers in Hall of Combat Mastery will lock the door the 1st time they appear in Trilogy.
The Jump Guardian Trick was removed in the Trilogy and Japanese GC Version.
In the Japanese and Trilogy releases, you must rotate all three lenses in Portal Terminal (Agon) to activate the portal, instead of only needing to rotate the third lens.
In the NTSC GC Version it was possible to Slope Jump on a wasp nest left to the half-pipe that leads to seeker to get it earlier without Boost Ball. It was removed in all other versions.
In the NTSC GC Version there is an Ing Pod that is positioned near the Save Station that let´s you Space Jump up to the 3rd Temple Key in Torvus so that you don´t need Grapple for it. It was removed in every other version.