I have a small anchor locker in the forward section of the cuddy. I believe it's visible in a shot or two in the Gallery. I plan to modify it some as things tend to get a little messy after some trips. I keep 300 feet of rode and a 10 pound Danforth in it!
I like the shelf space in my cuddy and have mounted a CD player and all kinds of storage bins all around it.
I too removed the cushions as they just get nasty after a few trips.
The centerline fishbox is reserved for ice and whoever decides to bite one of my lines! I allow no beverages or food in there as I don't particularly care for that slimy first gulp of "Essence of Fish".
I keep tackle in a big tackle box on the port side of the V-berth and a big cooler on the starboard side. Of course, in the heat of battle, I end up with tackle covering the port dash space too!
My fenders usually end up on the deck of the cuddy...not this year as I'm buying holders that mount to the bow rails! ;D
I've got 6 gunnel mounted rod holders and 4 transom mounted PVC holders. Plus the jankety plastic under-gunnel holders which is where the gaff and boat hook reside...as well as the infernal Sabiki rigged rod...gotta come up with something better for that! ???