What I remember reading of period standing orders is that the decks were washed & stoned daily.
Part of that is that no soap/detergent was carried for the decks; the decks were simply sluiced down with sea water and the stones floated in that.
This was less a maintenance item as a method of putting a few hundred idle hands to work lest they get up to mischief.
Now, I've never read, in orders, contemporary accounts, or even fiction, as to whether the guns were cast loose to was under them, or how the spirketting & waterway fared with groggy tars bashing sandstones about.
That's my 2¢ at least