As the title says, it would be cool to have something like the thing below.

disable-enderpearl-cooldown:
  # Disables enderpearl cooldown
  enabled: true
  worlds: []
  # The cooldown, in seconds
  cooldown: 15
  message: &b%cooldown placeholder thing maybe% left before using your enderpearl again...

I was just about to suggest this too. Would be really useful as players have no clue what's happening and why they can't use their pearls. Also, the config setting should be called enable-enderpearl-cooldown due to confusion.

Having it named disable-enderpearl-cooldown and having enabled: true just under it suggests that the cooldown should be disabled, but it's completely opposite in reality.

The naming convention is to describe what the module does.