Lua is faster and has some advantages for more advanced users: such as direct manipulation of spawns and inventories (and soon packets) that aren't easy to do with Perl and encounter quest types which aren't supported at all in Perl. Also as of this moment you can only interact with the npc special ability system just added using legacy API functions on Perl; the new ones are only exported to Lua.
For most quests you can basically use whatever you would like though as they'll both do the job.
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