Half a month later...
I'm happy to say that all of the improvements to this quest are now done. All that's left is for me to play through it and make sure everything works (which it should) and that it isn't too hard for me. (Which it shouldn't be.)
Warning! The new version of the quest will require Zelda Classic Version 2.50.2 or better. (Assuming such exists at the time you download it.) The reason for this is that it now performs bitmap drawing and that has been adjusted by that version where it would look wrong in older versions.
Here's a list of the adjustments to the quest. This list will also be included when the quest is updated on the database, so look for that to know when it is live.
*Added Golden Arrow check at entrance of Onox's Lair.
So people won't have to backtrack half the dungeon if they fail to get it.
*Added script so push block puzzles are now permanently solved.
*Fixed a variety of typos.
*Fixed a few minor script errors.
*Added scripted bosses to many dungeons.
*Changed minimap title style.
*Fixed a few solidity errors.
*Overhauled areas with water to prevent getting stuck on the ladder.
*Created a scripted Lens that reveals invisible ghosted enemies.
*Added a shop to sell Potions
*Added optional final boss for those who finish sidequests.
*Added second ending for those who finish sidequests.
New Bosses found in these levels-
Mothula- Level 4
Darknut Prince- Level 9
Phantom Ganon- Level 11
Arrghus- Level 12
Giant Trap- Level 13
Shadow Hag- Level 14
Frypolar- Level 16
Facade- Level 17
Onox (Normal)- L:evel 19
Onox (Dark Dragon)- Extra Final Boss for obtaining the Level 5 sword and completing the trading quest.
I'll post a reminder here once it is available.