When I had a Prowler I used the Plano box for the battery and my tackle. I also put the switches in the little compartment on the lid of the box.
On one of my Prowlers I put the FF forward of the center console. I used RAM and Tight-Lok articulated rod holders.
My first Prowler had a RhynoBar similar to the ones installed on the Drifter and X-Factor in the picture above. I think the RhynoBar set-up was the most effective of the various versions.