.. How can I open the glowing crate?

The glowing crate is sealed shut in a variety of ways.

However, you only need to use one inventory item to open it.

An item that's versatile.

And perhaps consists of many items.

Some tools would sure be handy.

Have you gone through the squeaky door on the main deck?

How can I get through the squeaky door?

There's a set of tools inside.

Why don't you take the ghost tools?

You can now use the ghost tools on the glowing crate to open it.