no

I guess you are talking about an emulated version, yes it is allowed, but the pirated version of the game have restriction that have bug and can prevent you from doing a good run, the game can remove you eggs, gems or some stuff, so search on google to fix this.

EDIT: see https://www.speedrun.com/spyro3/thread/5bm7r

yeah bro use the BAD version it wont steal ur eggs and reset u