Okay, I decided to try one of my old quests: Fragments of Power in beta 152. And I'm assuming this is still true in later versions:
ANY super bomb flags in any 1.90 quest, their secret combos are listed as normal bomb secret combos in beta 152 and above. So, for those areas requiring the superbomb. you MUST go into Zquest and edit all the Sbomb combos. So you can't simply just open up ZC beta 152 and play any old beta you want, yu need to edit it first to get the secret combos to work correctly. And I'm assuming this is true for Burn too. Using a Blue Candle will work fine, but using a red one will force it to use the new Red Candle secret combo, which isn't set to anything. Might want to fix this... maybe?