One thing about the VGA version is that it removed a room from the original version in the Troll Cave. But it also added extra or improved upon story elements from the original as well, in one case making a reference to a certain artifact in such a way that it had more direct ties into the series as a whole. There is also some forshadowing 'easter eggs' referencing characters, places, or events in later games, or simply the future games themselves. These references are mainly up to the third game or so (as that was the last previous game released when the remake was made). But a few foreshadowed QFG5 as well (and were utilized by fifth game).
The VGA version gives names for some of the characters, that were nameless in the original.
Also there are certain jokes and humor you can only get in the original since you can 'type' various commands, that simply don't exist in the remake. Trying 'cussing' for example!
Both versions have different sets of easter eggs, so keep a look out for that ;) (hint check out the lake and entrance room in Erasmus mansion or castle)
Post edited May 14, 2012 by Baggins